-- dump date 20140618_221123 -- class Genbank::misc_feature -- table misc_feature_note -- id note 334406000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 334406000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 334406000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406000004 Walker A motif; other site 334406000005 ATP binding site [chemical binding]; other site 334406000006 Walker B motif; other site 334406000007 arginine finger; other site 334406000008 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 334406000009 DnaA box-binding interface [nucleotide binding]; other site 334406000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 334406000011 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 334406000012 putative DNA binding surface [nucleotide binding]; other site 334406000013 dimer interface [polypeptide binding]; other site 334406000014 beta-clamp/clamp loader binding surface; other site 334406000015 beta-clamp/translesion DNA polymerase binding surface; other site 334406000016 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 334406000017 recombination protein F; Reviewed; Region: recF; PRK00064 334406000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 334406000019 Walker A/P-loop; other site 334406000020 ATP binding site [chemical binding]; other site 334406000021 Q-loop/lid; other site 334406000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406000023 ABC transporter signature motif; other site 334406000024 Walker B; other site 334406000025 D-loop; other site 334406000026 H-loop/switch region; other site 334406000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 334406000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406000029 Mg2+ binding site [ion binding]; other site 334406000030 G-X-G motif; other site 334406000031 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 334406000032 anchoring element; other site 334406000033 dimer interface [polypeptide binding]; other site 334406000034 ATP binding site [chemical binding]; other site 334406000035 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 334406000036 active site 334406000037 putative metal-binding site [ion binding]; other site 334406000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 334406000039 DNA gyrase subunit A; Validated; Region: PRK05560 334406000040 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 334406000041 CAP-like domain; other site 334406000042 active site 334406000043 primary dimer interface [polypeptide binding]; other site 334406000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334406000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334406000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334406000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334406000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334406000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334406000050 potential protein location (conserved hypothetical protein [Bacillus cereus NC7401]) that overlaps RNA (16S ribosomal RNA) 334406000051 YaaC-like Protein; Region: YaaC; pfam14175 334406000052 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 334406000053 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 334406000054 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 334406000055 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 334406000056 active site 334406000057 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 334406000058 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334406000059 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 334406000060 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 334406000061 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 334406000062 active site 334406000063 multimer interface [polypeptide binding]; other site 334406000064 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 334406000065 predicted active site [active] 334406000066 catalytic triad [active] 334406000067 seryl-tRNA synthetase; Provisional; Region: PRK05431 334406000068 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 334406000069 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 334406000070 dimer interface [polypeptide binding]; other site 334406000071 active site 334406000072 motif 1; other site 334406000073 motif 2; other site 334406000074 motif 3; other site 334406000075 Domain of unknown function (DUF3797); Region: DUF3797; pfam12677 334406000076 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406000077 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 334406000078 DNA binding residues [nucleotide binding] 334406000079 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 334406000080 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 334406000081 Substrate-binding site [chemical binding]; other site 334406000082 Substrate specificity [chemical binding]; other site 334406000083 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 334406000084 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 334406000085 Substrate-binding site [chemical binding]; other site 334406000086 Substrate specificity [chemical binding]; other site 334406000087 Isochorismatase family; Region: Isochorismatase; pfam00857 334406000088 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 334406000089 catalytic triad [active] 334406000090 conserved cis-peptide bond; other site 334406000091 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 334406000092 nucleoside/Zn binding site; other site 334406000093 dimer interface [polypeptide binding]; other site 334406000094 catalytic motif [active] 334406000095 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 334406000096 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406000097 Walker A motif; other site 334406000098 ATP binding site [chemical binding]; other site 334406000099 Walker B motif; other site 334406000100 arginine finger; other site 334406000101 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 334406000102 hypothetical protein; Validated; Region: PRK00153 334406000103 recombination protein RecR; Reviewed; Region: recR; PRK00076 334406000104 RecR protein; Region: RecR; pfam02132 334406000105 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 334406000106 putative active site [active] 334406000107 putative metal-binding site [ion binding]; other site 334406000108 tetramer interface [polypeptide binding]; other site 334406000109 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 334406000110 pro-sigmaK processing inhibitor BofA; Region: spore_BofA; TIGR02862 334406000111 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 334406000112 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 334406000113 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 334406000114 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334406000115 catalytic residue [active] 334406000116 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 334406000117 thymidylate kinase; Validated; Region: tmk; PRK00698 334406000118 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 334406000119 TMP-binding site; other site 334406000120 ATP-binding site [chemical binding]; other site 334406000121 DNA polymerase III subunit delta'; Validated; Region: PRK08058 334406000122 DNA polymerase III subunit delta'; Validated; Region: PRK08485 334406000123 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 334406000124 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 334406000125 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 334406000126 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406000127 S-adenosylmethionine binding site [chemical binding]; other site 334406000128 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 334406000129 GIY-YIG motif/motif A; other site 334406000130 putative active site [active] 334406000131 putative metal binding site [ion binding]; other site 334406000132 Predicted methyltransferases [General function prediction only]; Region: COG0313 334406000133 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 334406000134 putative SAM binding site [chemical binding]; other site 334406000135 putative homodimer interface [polypeptide binding]; other site 334406000136 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 334406000137 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 334406000138 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 334406000139 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 334406000140 active site 334406000141 HIGH motif; other site 334406000142 KMSKS motif; other site 334406000143 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 334406000144 tRNA binding surface [nucleotide binding]; other site 334406000145 anticodon binding site; other site 334406000146 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 334406000147 dimer interface [polypeptide binding]; other site 334406000148 putative tRNA-binding site [nucleotide binding]; other site 334406000149 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 334406000150 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 334406000151 active site 334406000152 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 334406000153 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 334406000154 putative active site [active] 334406000155 putative metal binding site [ion binding]; other site 334406000156 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 334406000157 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 334406000158 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406000159 S-adenosylmethionine binding site [chemical binding]; other site 334406000160 sporulation peptidase YabG; Region: spore_yabG; TIGR02855 334406000161 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 334406000162 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 334406000163 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 334406000164 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 334406000165 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 334406000166 pur operon repressor; Provisional; Region: PRK09213 334406000167 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 334406000168 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334406000169 active site 334406000170 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 334406000171 homotrimer interaction site [polypeptide binding]; other site 334406000172 putative active site [active] 334406000173 regulatory protein SpoVG; Reviewed; Region: PRK13259 334406000174 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 334406000175 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 334406000176 Substrate binding site; other site 334406000177 Mg++ binding site; other site 334406000178 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 334406000179 active site 334406000180 substrate binding site [chemical binding]; other site 334406000181 CoA binding site [chemical binding]; other site 334406000182 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 334406000183 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 334406000184 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334406000185 active site 334406000186 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 334406000187 putative active site [active] 334406000188 catalytic residue [active] 334406000189 Protein of unknown function (DUF2757); Region: DUF2757; pfam10955 334406000190 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 334406000191 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 334406000192 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 334406000193 ATP binding site [chemical binding]; other site 334406000194 putative Mg++ binding site [ion binding]; other site 334406000195 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406000196 nucleotide binding region [chemical binding]; other site 334406000197 ATP-binding site [chemical binding]; other site 334406000198 TRCF domain; Region: TRCF; pfam03461 334406000199 stage V sporulation protein T; Region: spore_V_T; TIGR02851 334406000200 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 334406000201 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 334406000202 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 334406000203 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 334406000204 putative SAM binding site [chemical binding]; other site 334406000205 putative homodimer interface [polypeptide binding]; other site 334406000206 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 334406000207 homodimer interface [polypeptide binding]; other site 334406000208 metal binding site [ion binding]; metal-binding site 334406000209 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 334406000210 homodimer interface [polypeptide binding]; other site 334406000211 active site 334406000212 putative chemical substrate binding site [chemical binding]; other site 334406000213 metal binding site [ion binding]; metal-binding site 334406000214 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 334406000215 RNA binding surface [nucleotide binding]; other site 334406000216 sporulation protein YabP; Region: spore_yabP; TIGR02892 334406000217 spore cortex biosynthesis protein YabQ; Region: spore_yabQ; TIGR02893 334406000218 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 334406000219 Septum formation initiator; Region: DivIC; pfam04977 334406000220 hypothetical protein; Provisional; Region: PRK08582 334406000221 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 334406000222 RNA binding site [nucleotide binding]; other site 334406000223 stage II sporulation protein E; Region: spore_II_E; TIGR02865 334406000224 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 334406000225 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 334406000226 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 334406000227 Ligand Binding Site [chemical binding]; other site 334406000228 TilS substrate binding domain; Region: TilS; pfam09179 334406000229 TilS substrate C-terminal domain; Region: TilS_C; smart00977 334406000230 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334406000231 active site 334406000232 FtsH Extracellular; Region: FtsH_ext; pfam06480 334406000233 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 334406000234 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406000235 Walker A motif; other site 334406000236 ATP binding site [chemical binding]; other site 334406000237 Walker B motif; other site 334406000238 arginine finger; other site 334406000239 Peptidase family M41; Region: Peptidase_M41; pfam01434 334406000240 pantothenate kinase; Reviewed; Region: PRK13318 334406000241 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 334406000242 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 334406000243 dimerization interface [polypeptide binding]; other site 334406000244 domain crossover interface; other site 334406000245 redox-dependent activation switch; other site 334406000246 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 334406000247 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 334406000248 dimer interface [polypeptide binding]; other site 334406000249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406000250 catalytic residue [active] 334406000251 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 334406000252 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 334406000253 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 334406000254 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 334406000255 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 334406000256 glutamine binding [chemical binding]; other site 334406000257 catalytic triad [active] 334406000258 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 334406000259 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 334406000260 homodimer interface [polypeptide binding]; other site 334406000261 substrate-cofactor binding pocket; other site 334406000262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406000263 catalytic residue [active] 334406000264 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 334406000265 dihydropteroate synthase; Region: DHPS; TIGR01496 334406000266 substrate binding pocket [chemical binding]; other site 334406000267 dimer interface [polypeptide binding]; other site 334406000268 inhibitor binding site; inhibition site 334406000269 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 334406000270 homooctamer interface [polypeptide binding]; other site 334406000271 active site 334406000272 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 334406000273 catalytic center binding site [active] 334406000274 ATP binding site [chemical binding]; other site 334406000275 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406000276 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406000277 non-specific DNA binding site [nucleotide binding]; other site 334406000278 salt bridge; other site 334406000279 sequence-specific DNA binding site [nucleotide binding]; other site 334406000280 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 334406000281 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 334406000282 FMN binding site [chemical binding]; other site 334406000283 active site 334406000284 catalytic residues [active] 334406000285 substrate binding site [chemical binding]; other site 334406000286 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 334406000287 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 334406000288 dimer interface [polypeptide binding]; other site 334406000289 putative anticodon binding site; other site 334406000290 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 334406000291 motif 1; other site 334406000292 active site 334406000293 motif 2; other site 334406000294 motif 3; other site 334406000295 potential protein location (conserved hypothetical protein [Bacillus cereus NC7401]) that overlaps RNA (16S ribosomal RNA) 334406000296 potential protein location (conserved hypothetical protein [Bacillus cereus NC7401]) that overlaps RNA (16S ribosomal RNA) 334406000297 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 334406000298 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 334406000299 UvrB/uvrC motif; Region: UVR; pfam02151 334406000300 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 334406000301 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 334406000302 ADP binding site [chemical binding]; other site 334406000303 phosphagen binding site; other site 334406000304 substrate specificity loop; other site 334406000305 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 334406000306 Clp amino terminal domain; Region: Clp_N; pfam02861 334406000307 Clp amino terminal domain; Region: Clp_N; pfam02861 334406000308 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406000309 Walker A motif; other site 334406000310 ATP binding site [chemical binding]; other site 334406000311 Walker B motif; other site 334406000312 arginine finger; other site 334406000313 UvrB/uvrC motif; Region: UVR; pfam02151 334406000314 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406000315 Walker A motif; other site 334406000316 ATP binding site [chemical binding]; other site 334406000317 Walker B motif; other site 334406000318 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 334406000319 DNA repair protein RadA; Provisional; Region: PRK11823 334406000320 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 334406000321 Walker A motif/ATP binding site; other site 334406000322 ATP binding site [chemical binding]; other site 334406000323 Walker B motif; other site 334406000324 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 334406000325 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 334406000326 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 334406000327 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 334406000328 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 334406000329 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 334406000330 putative active site [active] 334406000331 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 334406000332 substrate binding site; other site 334406000333 dimer interface; other site 334406000334 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 334406000335 homotrimer interaction site [polypeptide binding]; other site 334406000336 zinc binding site [ion binding]; other site 334406000337 CDP-binding sites; other site 334406000338 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 334406000339 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 334406000340 active site 334406000341 HIGH motif; other site 334406000342 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 334406000343 active site 334406000344 KMSKS motif; other site 334406000345 serine O-acetyltransferase; Region: cysE; TIGR01172 334406000346 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 334406000347 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 334406000348 trimer interface [polypeptide binding]; other site 334406000349 active site 334406000350 substrate binding site [chemical binding]; other site 334406000351 CoA binding site [chemical binding]; other site 334406000352 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 334406000353 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 334406000354 active site 334406000355 HIGH motif; other site 334406000356 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 334406000357 KMSKS motif; other site 334406000358 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 334406000359 tRNA binding surface [nucleotide binding]; other site 334406000360 anticodon binding site; other site 334406000361 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 334406000362 active site 334406000363 metal binding site [ion binding]; metal-binding site 334406000364 dimerization interface [polypeptide binding]; other site 334406000365 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 334406000366 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 334406000367 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 334406000368 YacP-like NYN domain; Region: NYN_YacP; pfam05991 334406000369 RNA polymerase sigma-H factor; Region: spore_sigH; TIGR02859 334406000370 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406000371 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 334406000372 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 334406000373 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 334406000374 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 334406000375 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 334406000376 putative homodimer interface [polypeptide binding]; other site 334406000377 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 334406000378 heterodimer interface [polypeptide binding]; other site 334406000379 homodimer interface [polypeptide binding]; other site 334406000380 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 334406000381 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 334406000382 23S rRNA interface [nucleotide binding]; other site 334406000383 L7/L12 interface [polypeptide binding]; other site 334406000384 putative thiostrepton binding site; other site 334406000385 L25 interface [polypeptide binding]; other site 334406000386 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 334406000387 mRNA/rRNA interface [nucleotide binding]; other site 334406000388 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 334406000389 23S rRNA interface [nucleotide binding]; other site 334406000390 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 334406000391 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 334406000392 core dimer interface [polypeptide binding]; other site 334406000393 peripheral dimer interface [polypeptide binding]; other site 334406000394 L10 interface [polypeptide binding]; other site 334406000395 L11 interface [polypeptide binding]; other site 334406000396 putative EF-Tu interaction site [polypeptide binding]; other site 334406000397 putative EF-G interaction site [polypeptide binding]; other site 334406000398 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 334406000399 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406000400 S-adenosylmethionine binding site [chemical binding]; other site 334406000401 DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; Region: RpoB; COG0085 334406000402 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 334406000403 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 334406000404 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 334406000405 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 334406000406 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 334406000407 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 334406000408 RPB10 interaction site [polypeptide binding]; other site 334406000409 RPB1 interaction site [polypeptide binding]; other site 334406000410 RPB11 interaction site [polypeptide binding]; other site 334406000411 RPB3 interaction site [polypeptide binding]; other site 334406000412 RPB12 interaction site [polypeptide binding]; other site 334406000413 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 334406000414 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 334406000415 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 334406000416 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 334406000417 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 334406000418 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 334406000419 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 334406000420 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 334406000421 G-loop; other site 334406000422 DNA binding site [nucleotide binding] 334406000423 hypothetical protein; Provisional; Region: PRK06683 334406000424 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 334406000425 S17 interaction site [polypeptide binding]; other site 334406000426 S8 interaction site; other site 334406000427 16S rRNA interaction site [nucleotide binding]; other site 334406000428 streptomycin interaction site [chemical binding]; other site 334406000429 23S rRNA interaction site [nucleotide binding]; other site 334406000430 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 334406000431 30S ribosomal protein S7; Validated; Region: PRK05302 334406000432 elongation factor G; Reviewed; Region: PRK00007 334406000433 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 334406000434 G1 box; other site 334406000435 putative GEF interaction site [polypeptide binding]; other site 334406000436 GTP/Mg2+ binding site [chemical binding]; other site 334406000437 Switch I region; other site 334406000438 G2 box; other site 334406000439 G3 box; other site 334406000440 Switch II region; other site 334406000441 G4 box; other site 334406000442 G5 box; other site 334406000443 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 334406000444 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 334406000445 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 334406000446 elongation factor Tu; Reviewed; Region: PRK00049 334406000447 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 334406000448 G1 box; other site 334406000449 GEF interaction site [polypeptide binding]; other site 334406000450 GTP/Mg2+ binding site [chemical binding]; other site 334406000451 Switch I region; other site 334406000452 G2 box; other site 334406000453 G3 box; other site 334406000454 Switch II region; other site 334406000455 G4 box; other site 334406000456 G5 box; other site 334406000457 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 334406000458 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 334406000459 Antibiotic Binding Site [chemical binding]; other site 334406000460 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 334406000461 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 334406000462 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 334406000463 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 334406000464 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 334406000465 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 334406000466 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 334406000467 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 334406000468 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 334406000469 putative translocon binding site; other site 334406000470 protein-rRNA interface [nucleotide binding]; other site 334406000471 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 334406000472 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 334406000473 G-X-X-G motif; other site 334406000474 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 334406000475 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 334406000476 23S rRNA interface [nucleotide binding]; other site 334406000477 5S rRNA interface [nucleotide binding]; other site 334406000478 putative antibiotic binding site [chemical binding]; other site 334406000479 L25 interface [polypeptide binding]; other site 334406000480 L27 interface [polypeptide binding]; other site 334406000481 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 334406000482 23S rRNA interface [nucleotide binding]; other site 334406000483 putative translocon interaction site; other site 334406000484 signal recognition particle (SRP54) interaction site; other site 334406000485 L23 interface [polypeptide binding]; other site 334406000486 trigger factor interaction site; other site 334406000487 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 334406000488 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 334406000489 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 334406000490 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 334406000491 RNA binding site [nucleotide binding]; other site 334406000492 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 334406000493 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 334406000494 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 334406000495 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 334406000496 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 334406000497 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 334406000498 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 334406000499 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 334406000500 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 334406000501 5S rRNA interface [nucleotide binding]; other site 334406000502 L27 interface [polypeptide binding]; other site 334406000503 23S rRNA interface [nucleotide binding]; other site 334406000504 L5 interface [polypeptide binding]; other site 334406000505 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 334406000506 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 334406000507 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 334406000508 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 334406000509 23S rRNA binding site [nucleotide binding]; other site 334406000510 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 334406000511 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK12907 334406000512 SecY translocase; Region: SecY; pfam00344 334406000513 adenylate kinase; Reviewed; Region: adk; PRK00279 334406000514 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 334406000515 AMP-binding site [chemical binding]; other site 334406000516 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 334406000517 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 334406000518 active site 334406000519 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 334406000520 rRNA binding site [nucleotide binding]; other site 334406000521 predicted 30S ribosome binding site; other site 334406000522 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 334406000523 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 334406000524 30S ribosomal protein S13; Region: bact_S13; TIGR03631 334406000525 30S ribosomal protein S11; Validated; Region: PRK05309 334406000526 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 334406000527 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 334406000528 alphaNTD - beta interaction site [polypeptide binding]; other site 334406000529 alphaNTD homodimer interface [polypeptide binding]; other site 334406000530 alphaNTD - beta' interaction site [polypeptide binding]; other site 334406000531 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 334406000532 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 334406000533 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 334406000534 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334406000535 Walker A/P-loop; other site 334406000536 ATP binding site [chemical binding]; other site 334406000537 Q-loop/lid; other site 334406000538 ABC transporter signature motif; other site 334406000539 Walker B; other site 334406000540 D-loop; other site 334406000541 H-loop/switch region; other site 334406000542 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 334406000543 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334406000544 Walker A/P-loop; other site 334406000545 ATP binding site [chemical binding]; other site 334406000546 Q-loop/lid; other site 334406000547 ABC transporter signature motif; other site 334406000548 Walker B; other site 334406000549 D-loop; other site 334406000550 H-loop/switch region; other site 334406000551 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 334406000552 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 334406000553 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 334406000554 dimerization interface 3.5A [polypeptide binding]; other site 334406000555 active site 334406000556 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 334406000557 23S rRNA interface [nucleotide binding]; other site 334406000558 L3 interface [polypeptide binding]; other site 334406000559 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 334406000560 Protein of unknown function (DUF2521); Region: DUF2521; pfam10730 334406000561 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 334406000562 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 334406000563 active site 334406000564 metal binding site [ion binding]; metal-binding site 334406000565 Domain of unknown function DUF59; Region: DUF59; pfam01883 334406000566 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 334406000567 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 334406000568 KinB-signalling pathway activation in sporulation; Region: KbaA; pfam14089 334406000569 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 334406000570 Putative catalytic NodB homology domain of Bacillus subtilis putative polysaccharide deacetylase PdaB, and its bacterial homologs; Region: CE4_BsPdaB_like; cd10949 334406000571 NodB motif; other site 334406000572 putative active site [active] 334406000573 putative catalytic site [active] 334406000574 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 334406000575 Arginase family; Region: Arginase; cd09989 334406000576 agmatinase; Region: agmatinase; TIGR01230 334406000577 active site 334406000578 Mn binding site [ion binding]; other site 334406000579 oligomer interface [polypeptide binding]; other site 334406000580 Uncharacterized conserved protein [Function unknown]; Region: COG1624 334406000581 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 334406000582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 334406000583 YbbR-like protein; Region: YbbR; pfam07949 334406000584 YbbR-like protein; Region: YbbR; pfam07949 334406000585 YbbR-like protein; Region: YbbR; pfam07949 334406000586 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 334406000587 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 334406000588 active site 334406000589 substrate binding site [chemical binding]; other site 334406000590 metal binding site [ion binding]; metal-binding site 334406000591 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 334406000592 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 334406000593 glutaminase active site [active] 334406000594 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 334406000595 dimer interface [polypeptide binding]; other site 334406000596 active site 334406000597 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 334406000598 dimer interface [polypeptide binding]; other site 334406000599 active site 334406000600 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334406000601 Transcriptional regulators [Transcription]; Region: GntR; COG1802 334406000602 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406000603 DNA-binding site [nucleotide binding]; DNA binding site 334406000604 FCD domain; Region: FCD; pfam07729 334406000605 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 334406000606 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 334406000607 N- and C-terminal domain interface [polypeptide binding]; other site 334406000608 active site 334406000609 catalytic site [active] 334406000610 metal binding site [ion binding]; metal-binding site 334406000611 carbohydrate binding site [chemical binding]; other site 334406000612 ATP binding site [chemical binding]; other site 334406000613 fructuronate transporter; Provisional; Region: PRK10034; cl15264 334406000614 gluconate transporter; Region: gntP; TIGR00791 334406000615 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 334406000616 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 334406000617 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 334406000618 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 334406000619 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 334406000620 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 334406000621 DoxX; Region: DoxX; cl17842 334406000622 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 334406000623 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 334406000624 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 334406000625 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406000626 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406000627 DNA binding residues [nucleotide binding] 334406000628 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12859 334406000629 classical (c) SDRs; Region: SDR_c; cd05233 334406000630 NAD(P) binding site [chemical binding]; other site 334406000631 active site 334406000632 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406000633 ABC-ATPase subunit interface; other site 334406000634 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 334406000635 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 334406000636 Walker A/P-loop; other site 334406000637 ATP binding site [chemical binding]; other site 334406000638 Q-loop/lid; other site 334406000639 ABC transporter signature motif; other site 334406000640 Walker B; other site 334406000641 D-loop; other site 334406000642 H-loop/switch region; other site 334406000643 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 334406000644 NIL domain; Region: NIL; pfam09383 334406000645 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 334406000646 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 334406000647 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 334406000648 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 334406000649 putative NAD(P) binding site [chemical binding]; other site 334406000650 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 334406000651 FAD binding domain; Region: FAD_binding_4; pfam01565 334406000652 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 334406000653 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406000654 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406000655 putative substrate translocation pore; other site 334406000656 Domain of unknown function (DUF3981); Region: DUF3981; pfam13139 334406000657 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 334406000658 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406000659 putative substrate translocation pore; other site 334406000660 Protein of unknown function (DUF3887); Region: DUF3887; pfam13026 334406000661 Protein of unknown function (DUF3951); Region: DUF3951; pfam13131 334406000662 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 334406000663 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406000664 dimer interface [polypeptide binding]; other site 334406000665 conserved gate region; other site 334406000666 putative PBP binding loops; other site 334406000667 ABC-ATPase subunit interface; other site 334406000668 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 334406000669 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 334406000670 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406000671 dimer interface [polypeptide binding]; other site 334406000672 conserved gate region; other site 334406000673 putative PBP binding loops; other site 334406000674 ABC-ATPase subunit interface; other site 334406000675 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 334406000676 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 334406000677 Walker A/P-loop; other site 334406000678 ATP binding site [chemical binding]; other site 334406000679 Q-loop/lid; other site 334406000680 ABC transporter signature motif; other site 334406000681 Walker B; other site 334406000682 D-loop; other site 334406000683 H-loop/switch region; other site 334406000684 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 334406000685 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 334406000686 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 334406000687 Walker A/P-loop; other site 334406000688 ATP binding site [chemical binding]; other site 334406000689 Q-loop/lid; other site 334406000690 ABC transporter signature motif; other site 334406000691 Walker B; other site 334406000692 D-loop; other site 334406000693 H-loop/switch region; other site 334406000694 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 334406000695 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 334406000696 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 334406000697 peptide binding site [polypeptide binding]; other site 334406000698 YusW-like protein; Region: YusW; pfam14039 334406000699 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 334406000700 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 334406000701 peptide binding site [polypeptide binding]; other site 334406000702 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 334406000703 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 334406000704 peptide binding site [polypeptide binding]; other site 334406000705 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 334406000706 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334406000707 active site 334406000708 catalytic tetrad [active] 334406000709 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK07634 334406000710 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 334406000711 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 334406000712 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 334406000713 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 334406000714 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406000715 putative PBP binding loops; other site 334406000716 dimer interface [polypeptide binding]; other site 334406000717 ABC-ATPase subunit interface; other site 334406000718 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 334406000719 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 334406000720 dimerization interface [polypeptide binding]; other site 334406000721 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 334406000722 membrane-bound complex binding site; other site 334406000723 hinge residues; other site 334406000724 DNA binding domain, excisionase family; Region: excise; TIGR01764 334406000725 PBP superfamily domain; Region: PBP_like; pfam12727 334406000726 Protein of unknown function (DUF3948); Region: DUF3948; pfam13134 334406000727 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334406000728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334406000729 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 334406000730 putative dimerization interface [polypeptide binding]; other site 334406000731 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 334406000732 EamA-like transporter family; Region: EamA; pfam00892 334406000733 YrzO-like protein; Region: YrzO; pfam14142 334406000734 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 334406000735 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 334406000736 putative acyl-acceptor binding pocket; other site 334406000737 Protein of unknown function (DUF3948); Region: DUF3948; pfam13134 334406000738 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334406000739 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334406000740 DNA binding site [nucleotide binding] 334406000741 domain linker motif; other site 334406000742 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 334406000743 putative ligand binding site [chemical binding]; other site 334406000744 putative dimerization interface [polypeptide binding]; other site 334406000745 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334406000746 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406000747 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406000748 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 334406000749 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 334406000750 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 334406000751 active site 334406000752 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 334406000753 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 334406000754 C-type lysozyme (1, 4-beta-N-acetylmuramidase, LYZ) and alpha-lactalbumin (lactose synthase B protein, LA). They have a close evolutionary relationship and similar tertiary structure, however, functionally they are quite different. Lysozymes have...; Region: LYZ1; cl17441 334406000755 lysozyme catalytic site [active] 334406000756 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 334406000757 nucleotide binding site/active site [active] 334406000758 HIT family signature motif; other site 334406000759 catalytic residue [active] 334406000760 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334406000761 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406000762 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406000763 ABC transporter; Region: ABC_tran_2; pfam12848 334406000764 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406000765 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 334406000766 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 334406000767 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 334406000768 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 334406000769 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 334406000770 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406000771 dimer interface [polypeptide binding]; other site 334406000772 conserved gate region; other site 334406000773 putative PBP binding loops; other site 334406000774 ABC-ATPase subunit interface; other site 334406000775 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 334406000776 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 334406000777 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406000778 dimer interface [polypeptide binding]; other site 334406000779 conserved gate region; other site 334406000780 putative PBP binding loops; other site 334406000781 ABC-ATPase subunit interface; other site 334406000782 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 334406000783 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 334406000784 Walker A/P-loop; other site 334406000785 ATP binding site [chemical binding]; other site 334406000786 Q-loop/lid; other site 334406000787 ABC transporter signature motif; other site 334406000788 Walker B; other site 334406000789 D-loop; other site 334406000790 H-loop/switch region; other site 334406000791 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 334406000792 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 334406000793 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 334406000794 Walker A/P-loop; other site 334406000795 ATP binding site [chemical binding]; other site 334406000796 Q-loop/lid; other site 334406000797 ABC transporter signature motif; other site 334406000798 Walker B; other site 334406000799 D-loop; other site 334406000800 H-loop/switch region; other site 334406000801 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 334406000802 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406000803 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334406000804 active site 334406000805 motif I; other site 334406000806 motif II; other site 334406000807 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406000808 motif II; other site 334406000809 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 334406000810 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 334406000811 dimer interface [polypeptide binding]; other site 334406000812 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 334406000813 active site 334406000814 Fe binding site [ion binding]; other site 334406000815 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 334406000816 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 334406000817 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 334406000818 amino acid transporter; Region: 2A0306; TIGR00909 334406000819 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 334406000820 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406000821 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406000822 putative substrate translocation pore; other site 334406000823 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 334406000824 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 334406000825 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 334406000826 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 334406000827 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334406000828 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334406000829 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334406000830 helicase 45; Provisional; Region: PTZ00424 334406000831 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 334406000832 ATP binding site [chemical binding]; other site 334406000833 Mg++ binding site [ion binding]; other site 334406000834 motif III; other site 334406000835 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406000836 nucleotide binding region [chemical binding]; other site 334406000837 ATP-binding site [chemical binding]; other site 334406000838 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 334406000839 Rhomboid family; Region: Rhomboid; pfam01694 334406000840 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 334406000841 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 334406000842 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 334406000843 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 334406000844 alanine racemase; Reviewed; Region: alr; PRK00053 334406000845 active site 334406000846 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 334406000847 dimer interface [polypeptide binding]; other site 334406000848 substrate binding site [chemical binding]; other site 334406000849 catalytic residues [active] 334406000850 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 334406000851 PemK-like protein; Region: PemK; pfam02452 334406000852 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 334406000853 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 334406000854 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 334406000855 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 334406000856 RNA binding site [nucleotide binding]; other site 334406000857 SprT homologues; Region: SprT; cl01182 334406000858 SprT-like family; Region: SprT-like; pfam10263 334406000859 potential protein location (hypothetical protein BCN_0250 [Bacillus cereus NC7401]) that overlaps RNA (16S ribosomal RNA) 334406000860 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 334406000861 Glycoprotease family; Region: Peptidase_M22; pfam00814 334406000862 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 334406000863 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 334406000864 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406000865 Coenzyme A binding pocket [chemical binding]; other site 334406000866 UGMP family protein; Validated; Region: PRK09604 334406000867 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 334406000868 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 334406000869 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334406000870 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406000871 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406000872 ABC transporter; Region: ABC_tran_2; pfam12848 334406000873 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406000874 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 334406000875 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 334406000876 CoA binding domain; Region: CoA_binding; pfam02629 334406000877 Domain of unknown function (DUF4305); Region: DUF4305; pfam14146 334406000878 CAAX protease self-immunity; Region: Abi; pfam02517 334406000879 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 334406000880 oligomerisation interface [polypeptide binding]; other site 334406000881 mobile loop; other site 334406000882 roof hairpin; other site 334406000883 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 334406000884 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 334406000885 ring oligomerisation interface [polypeptide binding]; other site 334406000886 ATP/Mg binding site [chemical binding]; other site 334406000887 stacking interactions; other site 334406000888 hinge regions; other site 334406000889 GMP synthase; Reviewed; Region: guaA; PRK00074 334406000890 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 334406000891 AMP/PPi binding site [chemical binding]; other site 334406000892 candidate oxyanion hole; other site 334406000893 catalytic triad [active] 334406000894 potential glutamine specificity residues [chemical binding]; other site 334406000895 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 334406000896 ATP Binding subdomain [chemical binding]; other site 334406000897 Ligand Binding sites [chemical binding]; other site 334406000898 Dimerization subdomain; other site 334406000899 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 334406000900 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406000901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406000902 active site 334406000903 phosphorylation site [posttranslational modification] 334406000904 intermolecular recognition site; other site 334406000905 dimerization interface [polypeptide binding]; other site 334406000906 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406000907 DNA binding site [nucleotide binding] 334406000908 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406000909 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406000910 dimerization interface [polypeptide binding]; other site 334406000911 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406000912 dimer interface [polypeptide binding]; other site 334406000913 phosphorylation site [posttranslational modification] 334406000914 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406000915 ATP binding site [chemical binding]; other site 334406000916 Mg2+ binding site [ion binding]; other site 334406000917 G-X-G motif; other site 334406000918 potential protein location (hypothetical protein BCN_0266 [Bacillus cereus NC7401]) that overlaps RNA (16S ribosomal RNA) 334406000919 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 334406000920 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 334406000921 catalytic residues [active] 334406000922 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 334406000923 putative ligand binding site [chemical binding]; other site 334406000924 putative catalytic site [active] 334406000925 Methyltransferase domain; Region: Methyltransf_31; pfam13847 334406000926 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406000927 S-adenosylmethionine binding site [chemical binding]; other site 334406000928 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406000929 S-adenosylmethionine binding site [chemical binding]; other site 334406000930 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 334406000931 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 334406000932 UDP-glucose 4-epimerase (G4E), subgroup 5, extended (e) SDRs; Region: UDP_G4E_5_SDR_e; cd05264 334406000933 putative NAD(P) binding site [chemical binding]; other site 334406000934 active site 334406000935 putative substrate binding site [chemical binding]; other site 334406000936 Methyltransferase domain; Region: Methyltransf_23; pfam13489 334406000937 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406000938 S-adenosylmethionine binding site [chemical binding]; other site 334406000939 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334406000940 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 334406000941 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 334406000942 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 334406000943 active site 334406000944 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 334406000945 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406000946 DNA-binding site [nucleotide binding]; DNA binding site 334406000947 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406000948 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406000949 homodimer interface [polypeptide binding]; other site 334406000950 catalytic residue [active] 334406000951 Proline dehydrogenase; Region: Pro_dh; cl03282 334406000952 Probable transposase; Region: OrfB_IS605; pfam01385 334406000953 EamA-like transporter family; Region: EamA; pfam00892 334406000954 Homeodomain-like domain; Region: HTH_23; cl17451 334406000955 putative transposase OrfB; Reviewed; Region: PHA02517 334406000956 HTH-like domain; Region: HTH_21; pfam13276 334406000957 Integrase core domain; Region: rve; pfam00665 334406000958 Integrase core domain; Region: rve_2; pfam13333 334406000959 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 334406000960 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 334406000961 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 334406000962 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 334406000963 NAD binding site [chemical binding]; other site 334406000964 ATP-grasp domain; Region: ATP-grasp; pfam02222 334406000965 adenylosuccinate lyase; Provisional; Region: PRK07492 334406000966 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 334406000967 tetramer interface [polypeptide binding]; other site 334406000968 active site 334406000969 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 334406000970 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 334406000971 ATP binding site [chemical binding]; other site 334406000972 active site 334406000973 substrate binding site [chemical binding]; other site 334406000974 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 334406000975 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 334406000976 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 334406000977 putative active site [active] 334406000978 catalytic triad [active] 334406000979 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 334406000980 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 334406000981 dimerization interface [polypeptide binding]; other site 334406000982 ATP binding site [chemical binding]; other site 334406000983 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 334406000984 dimerization interface [polypeptide binding]; other site 334406000985 ATP binding site [chemical binding]; other site 334406000986 amidophosphoribosyltransferase; Provisional; Region: PRK06781 334406000987 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 334406000988 active site 334406000989 tetramer interface [polypeptide binding]; other site 334406000990 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334406000991 active site 334406000992 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 334406000993 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 334406000994 dimerization interface [polypeptide binding]; other site 334406000995 putative ATP binding site [chemical binding]; other site 334406000996 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 334406000997 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 334406000998 active site 334406000999 substrate binding site [chemical binding]; other site 334406001000 cosubstrate binding site; other site 334406001001 catalytic site [active] 334406001002 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 334406001003 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 334406001004 purine monophosphate binding site [chemical binding]; other site 334406001005 dimer interface [polypeptide binding]; other site 334406001006 putative catalytic residues [active] 334406001007 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 334406001008 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 334406001009 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 334406001010 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 334406001011 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 334406001012 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 334406001013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 334406001014 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 334406001015 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 334406001016 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 334406001017 PcrB family; Region: PcrB; pfam01884 334406001018 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 334406001019 substrate binding site [chemical binding]; other site 334406001020 putative active site [active] 334406001021 dimer interface [polypeptide binding]; other site 334406001022 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 334406001023 Part of AAA domain; Region: AAA_19; pfam13245 334406001024 Family description; Region: UvrD_C_2; pfam13538 334406001025 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 334406001026 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 334406001027 nucleotide binding pocket [chemical binding]; other site 334406001028 K-X-D-G motif; other site 334406001029 catalytic site [active] 334406001030 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 334406001031 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 334406001032 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 334406001033 Dimer interface [polypeptide binding]; other site 334406001034 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 334406001035 putative dimer interface [polypeptide binding]; other site 334406001036 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 334406001037 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 334406001038 putative dimer interface [polypeptide binding]; other site 334406001039 hypothetical protein; Provisional; Region: PRK10621 334406001040 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 334406001041 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 334406001042 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 334406001043 Glutamate binding site [chemical binding]; other site 334406001044 homodimer interface [polypeptide binding]; other site 334406001045 NAD binding site [chemical binding]; other site 334406001046 catalytic residues [active] 334406001047 Isochorismatase family; Region: Isochorismatase; pfam00857 334406001048 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 334406001049 catalytic triad [active] 334406001050 conserved cis-peptide bond; other site 334406001051 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 334406001052 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 334406001053 Walker A/P-loop; other site 334406001054 ATP binding site [chemical binding]; other site 334406001055 Q-loop/lid; other site 334406001056 ABC transporter signature motif; other site 334406001057 Walker B; other site 334406001058 D-loop; other site 334406001059 H-loop/switch region; other site 334406001060 NIL domain; Region: NIL; pfam09383 334406001061 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406001062 dimer interface [polypeptide binding]; other site 334406001063 conserved gate region; other site 334406001064 ABC-ATPase subunit interface; other site 334406001065 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 334406001066 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 334406001067 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 334406001068 Protein of unknown function (DUF3926); Region: DUF3926; pfam13080 334406001069 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 334406001070 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 334406001071 P loop; other site 334406001072 Nucleotide binding site [chemical binding]; other site 334406001073 DTAP/Switch II; other site 334406001074 Switch I; other site 334406001075 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 334406001076 putative dimer interface [polypeptide binding]; other site 334406001077 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406001078 MarR family; Region: MarR; pfam01047 334406001079 MarR family; Region: MarR_2; cl17246 334406001080 yiaA/B two helix domain; Region: YiaAB; pfam05360 334406001081 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 334406001082 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 334406001083 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 334406001084 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 334406001085 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 334406001086 GatB domain; Region: GatB_Yqey; pfam02637 334406001087 putative lipid kinase; Reviewed; Region: PRK13337 334406001088 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 334406001089 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 334406001090 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 334406001091 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406001092 S-adenosylmethionine binding site [chemical binding]; other site 334406001093 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 334406001094 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406001095 motif II; other site 334406001096 4-aminobutyrate aminotransferase; Reviewed; Region: PRK06918 334406001097 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 334406001098 inhibitor-cofactor binding pocket; inhibition site 334406001099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406001100 catalytic residue [active] 334406001101 PAS domain; Region: PAS_9; pfam13426 334406001102 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406001103 putative active site [active] 334406001104 heme pocket [chemical binding]; other site 334406001105 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 334406001106 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406001107 Walker A motif; other site 334406001108 ATP binding site [chemical binding]; other site 334406001109 Walker B motif; other site 334406001110 arginine finger; other site 334406001111 succinic semialdehyde dehydrogenase; Region: PLN02278 334406001112 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 334406001113 tetramerization interface [polypeptide binding]; other site 334406001114 NAD(P) binding site [chemical binding]; other site 334406001115 catalytic residues [active] 334406001116 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 334406001117 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 334406001118 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 334406001119 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 334406001120 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 334406001121 putative active site [active] 334406001122 putative metal binding site [ion binding]; other site 334406001123 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 334406001124 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 334406001125 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 334406001126 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 334406001127 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 334406001128 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406001129 S-adenosylmethionine binding site [chemical binding]; other site 334406001130 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 334406001131 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 334406001132 FMN binding site [chemical binding]; other site 334406001133 active site 334406001134 catalytic residues [active] 334406001135 substrate binding site [chemical binding]; other site 334406001136 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 334406001137 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 334406001138 PAS domain S-box; Region: sensory_box; TIGR00229 334406001139 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406001140 putative active site [active] 334406001141 heme pocket [chemical binding]; other site 334406001142 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 334406001143 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 334406001144 metal binding site [ion binding]; metal-binding site 334406001145 active site 334406001146 I-site; other site 334406001147 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 334406001148 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 334406001149 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 334406001150 PYR/PP interface [polypeptide binding]; other site 334406001151 dimer interface [polypeptide binding]; other site 334406001152 TPP binding site [chemical binding]; other site 334406001153 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 334406001154 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 334406001155 TPP-binding site [chemical binding]; other site 334406001156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 334406001157 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 334406001158 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 334406001159 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406001160 FeS/SAM binding site; other site 334406001161 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 334406001162 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 334406001163 FAD binding domain; Region: FAD_binding_4; pfam01565 334406001164 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 334406001165 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 334406001166 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 334406001167 metal binding site [ion binding]; metal-binding site 334406001168 dimer interface [polypeptide binding]; other site 334406001169 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 334406001170 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406001171 non-specific DNA binding site [nucleotide binding]; other site 334406001172 salt bridge; other site 334406001173 sequence-specific DNA binding site [nucleotide binding]; other site 334406001174 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 334406001175 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334406001176 TPR motif; other site 334406001177 binding surface 334406001178 TPR repeat; Region: TPR_11; pfam13414 334406001179 seryl-tRNA synthetase; Provisional; Region: PRK05431 334406001180 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 334406001181 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 334406001182 dimer interface [polypeptide binding]; other site 334406001183 active site 334406001184 motif 1; other site 334406001185 motif 2; other site 334406001186 motif 3; other site 334406001187 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 334406001188 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 334406001189 catalytic triad [active] 334406001190 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 334406001191 AMP-binding enzyme; Region: AMP-binding; pfam00501 334406001192 acyl-activating enzyme (AAE) consensus motif; other site 334406001193 AMP binding site [chemical binding]; other site 334406001194 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 334406001195 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406001196 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406001197 putative substrate translocation pore; other site 334406001198 putative transposase OrfB; Reviewed; Region: PHA02517 334406001199 HTH-like domain; Region: HTH_21; pfam13276 334406001200 Integrase core domain; Region: rve; pfam00665 334406001201 Integrase core domain; Region: rve_2; pfam13333 334406001202 Transposase; Region: HTH_Tnp_1; pfam01527 334406001203 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334406001204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 334406001205 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 334406001206 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 334406001207 Protein of unknown function DUF45; Region: DUF45; pfam01863 334406001208 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 334406001209 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 334406001210 active site 334406001211 Predicted transcriptional regulator [Transcription]; Region: COG3355 334406001212 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 334406001213 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 334406001214 M20 Peptidase Aminoacylase 1 amhX_like subfamily; Region: M20_Acy1_amhX_like; cd08018 334406001215 metal binding site [ion binding]; metal-binding site 334406001216 putative dimer interface [polypeptide binding]; other site 334406001217 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406001218 S-adenosylmethionine binding site [chemical binding]; other site 334406001219 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 334406001220 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 334406001221 catalytic residue [active] 334406001222 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 334406001223 catalytic residues [active] 334406001224 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334406001225 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334406001226 peroxiredoxin; Region: AhpC; TIGR03137 334406001227 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 334406001228 dimer interface [polypeptide binding]; other site 334406001229 decamer (pentamer of dimers) interface [polypeptide binding]; other site 334406001230 catalytic triad [active] 334406001231 peroxidatic and resolving cysteines [active] 334406001232 5-methylribose kinase; Reviewed; Region: PRK12396 334406001233 Phosphotransferase enzyme family; Region: APH; pfam01636 334406001234 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 334406001235 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 334406001236 L-fuculose phosphate aldolase; Provisional; Region: PRK06833 334406001237 intersubunit interface [polypeptide binding]; other site 334406001238 active site 334406001239 Zn2+ binding site [ion binding]; other site 334406001240 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 334406001241 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406001242 ABC-ATPase subunit interface; other site 334406001243 dimer interface [polypeptide binding]; other site 334406001244 putative PBP binding regions; other site 334406001245 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 334406001246 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406001247 ABC-ATPase subunit interface; other site 334406001248 dimer interface [polypeptide binding]; other site 334406001249 putative PBP binding regions; other site 334406001250 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 334406001251 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 334406001252 putative ligand binding residues [chemical binding]; other site 334406001253 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 334406001254 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334406001255 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 334406001256 DNA binding domain, excisionase family; Region: excise; TIGR01764 334406001257 Sm and related proteins; Region: Sm_like; cl00259 334406001258 Sm1 motif; other site 334406001259 RNA binding site [nucleotide binding]; other site 334406001260 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 334406001261 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 334406001262 hypothetical protein; Provisional; Region: PRK06851 334406001263 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 334406001264 Walker A motif; other site 334406001265 ATP binding site [chemical binding]; other site 334406001266 NTPase; Region: NTPase_1; cl17478 334406001267 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 334406001268 benzoate transport; Region: 2A0115; TIGR00895 334406001269 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406001270 putative substrate translocation pore; other site 334406001271 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406001272 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 334406001273 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 334406001274 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 334406001275 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 334406001276 [2Fe-2S] cluster binding site [ion binding]; other site 334406001277 Fatty acid desaturase; Region: FA_desaturase; pfam00487 334406001278 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 334406001279 putative di-iron ligands [ion binding]; other site 334406001280 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 334406001281 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 334406001282 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 334406001283 HEAT repeats; Region: HEAT_2; pfam13646 334406001284 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406001285 active site 334406001286 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 334406001287 phosphorylation site [posttranslational modification] 334406001288 intermolecular recognition site; other site 334406001289 dimerization interface [polypeptide binding]; other site 334406001290 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406001291 dimer interface [polypeptide binding]; other site 334406001292 conserved gate region; other site 334406001293 putative PBP binding loops; other site 334406001294 ABC-ATPase subunit interface; other site 334406001295 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334406001296 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 334406001297 substrate binding pocket [chemical binding]; other site 334406001298 membrane-bound complex binding site; other site 334406001299 hinge residues; other site 334406001300 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334406001301 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 334406001302 Walker A/P-loop; other site 334406001303 ATP binding site [chemical binding]; other site 334406001304 Q-loop/lid; other site 334406001305 ABC transporter signature motif; other site 334406001306 Walker B; other site 334406001307 D-loop; other site 334406001308 H-loop/switch region; other site 334406001309 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 334406001310 HAMP domain; Region: HAMP; pfam00672 334406001311 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 334406001312 dimer interface [polypeptide binding]; other site 334406001313 putative CheW interface [polypeptide binding]; other site 334406001314 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 334406001315 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 334406001316 Ca binding site [ion binding]; other site 334406001317 active site 334406001318 catalytic site [active] 334406001319 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 334406001320 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 334406001321 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 334406001322 active site turn [active] 334406001323 phosphorylation site [posttranslational modification] 334406001324 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 334406001325 putative catalytic site [active] 334406001326 putative metal binding site [ion binding]; other site 334406001327 putative phosphate binding site [ion binding]; other site 334406001328 Predicted membrane protein [Function unknown]; Region: COG1511 334406001329 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 334406001330 Predicted membrane protein [Function unknown]; Region: COG1511 334406001331 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 334406001332 dinuclear metal binding motif [ion binding]; other site 334406001333 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406001334 DNA topoisomerase III; Provisional; Region: PRK07726 334406001335 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 334406001336 active site 334406001337 putative interdomain interaction site [polypeptide binding]; other site 334406001338 putative metal-binding site [ion binding]; other site 334406001339 putative nucleotide binding site [chemical binding]; other site 334406001340 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 334406001341 domain I; other site 334406001342 DNA binding groove [nucleotide binding] 334406001343 phosphate binding site [ion binding]; other site 334406001344 domain II; other site 334406001345 domain III; other site 334406001346 nucleotide binding site [chemical binding]; other site 334406001347 catalytic site [active] 334406001348 domain IV; other site 334406001349 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406001350 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 334406001351 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 334406001352 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334406001353 FtsX-like permease family; Region: FtsX; pfam02687 334406001354 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406001355 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406001356 Walker A/P-loop; other site 334406001357 ATP binding site [chemical binding]; other site 334406001358 Q-loop/lid; other site 334406001359 ABC transporter signature motif; other site 334406001360 Walker B; other site 334406001361 D-loop; other site 334406001362 H-loop/switch region; other site 334406001363 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 334406001364 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 334406001365 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406001366 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406001367 Walker A/P-loop; other site 334406001368 ATP binding site [chemical binding]; other site 334406001369 Q-loop/lid; other site 334406001370 ABC transporter signature motif; other site 334406001371 Walker B; other site 334406001372 D-loop; other site 334406001373 H-loop/switch region; other site 334406001374 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 334406001375 active site 334406001376 putative metal-binding site [ion binding]; other site 334406001377 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 334406001378 substrate binding site [chemical binding]; other site 334406001379 multimerization interface [polypeptide binding]; other site 334406001380 ATP binding site [chemical binding]; other site 334406001381 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 334406001382 thiamine phosphate binding site [chemical binding]; other site 334406001383 active site 334406001384 pyrophosphate binding site [ion binding]; other site 334406001385 Predicted esterase [General function prediction only]; Region: COG0400 334406001386 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 334406001387 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 334406001388 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 334406001389 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 334406001390 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406001391 dimerization interface [polypeptide binding]; other site 334406001392 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 334406001393 dimer interface [polypeptide binding]; other site 334406001394 putative CheW interface [polypeptide binding]; other site 334406001395 Domain of unknown function DUF77; Region: DUF77; pfam01910 334406001396 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 334406001397 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406001398 dimer interface [polypeptide binding]; other site 334406001399 conserved gate region; other site 334406001400 putative PBP binding loops; other site 334406001401 ABC-ATPase subunit interface; other site 334406001402 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 334406001403 NMT1/THI5 like; Region: NMT1; pfam09084 334406001404 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 334406001405 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 334406001406 Walker A/P-loop; other site 334406001407 ATP binding site [chemical binding]; other site 334406001408 Q-loop/lid; other site 334406001409 ABC transporter signature motif; other site 334406001410 Walker B; other site 334406001411 D-loop; other site 334406001412 H-loop/switch region; other site 334406001413 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334406001414 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406001415 Walker A/P-loop; other site 334406001416 ATP binding site [chemical binding]; other site 334406001417 Q-loop/lid; other site 334406001418 ABC transporter signature motif; other site 334406001419 Walker B; other site 334406001420 D-loop; other site 334406001421 H-loop/switch region; other site 334406001422 ABC transporter; Region: ABC_tran_2; pfam12848 334406001423 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406001424 Glyco_18 domain; Region: Glyco_18; smart00636 334406001425 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 334406001426 active site 334406001427 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 334406001428 Interdomain contacts; other site 334406001429 Cytokine receptor motif; other site 334406001430 CBD_II domain; Region: CBD_II; smart00637 334406001431 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 334406001432 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 334406001433 catalytic residues [active] 334406001434 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406001435 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406001436 QacR-like protein, C-terminal region; Region: TetR_C_5; pfam08360 334406001437 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406001438 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406001439 putative substrate translocation pore; other site 334406001440 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406001441 non-specific DNA binding site [nucleotide binding]; other site 334406001442 salt bridge; other site 334406001443 sequence-specific DNA binding site [nucleotide binding]; other site 334406001444 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 334406001445 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406001446 putative substrate translocation pore; other site 334406001447 Uncharacterized conserved protein [Function unknown]; Region: COG3379 334406001448 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 334406001449 YesK-like protein; Region: YesK; pfam14150 334406001450 prolyl-tRNA synthetase; Provisional; Region: PRK08661 334406001451 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 334406001452 dimer interface [polypeptide binding]; other site 334406001453 motif 1; other site 334406001454 active site 334406001455 motif 2; other site 334406001456 motif 3; other site 334406001457 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 334406001458 anticodon binding site; other site 334406001459 zinc-binding site [ion binding]; other site 334406001460 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 334406001461 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 334406001462 nucleotide binding site [chemical binding]; other site 334406001463 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 334406001464 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 334406001465 putative metal binding site [ion binding]; other site 334406001466 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 334406001467 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 334406001468 putative metal binding site [ion binding]; other site 334406001469 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 334406001470 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 334406001471 putative metal binding site [ion binding]; other site 334406001472 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 334406001473 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 334406001474 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 334406001475 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 334406001476 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 334406001477 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334406001478 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 334406001479 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 334406001480 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 334406001481 Protein of unknown function (DUF1128); Region: DUF1128; pfam06569 334406001482 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 334406001483 Low molecular weight phosphatase family; Region: LMWPc; cd00115 334406001484 active site 334406001485 Domain of unknown function (DUF4075); Region: DUF4075; pfam13294 334406001486 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 334406001487 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 334406001488 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334406001489 Soluble P-type ATPase [General function prediction only]; Region: COG4087 334406001490 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 334406001491 EamA-like transporter family; Region: EamA; pfam00892 334406001492 EamA-like transporter family; Region: EamA; pfam00892 334406001493 YhhN-like protein; Region: YhhN; pfam07947 334406001494 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 334406001495 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 334406001496 Catalytic site [active] 334406001497 Tetratricopeptide repeat; Region: TPR_16; pfam13432 334406001498 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406001499 binding surface 334406001500 TPR motif; other site 334406001501 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 334406001502 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 334406001503 Predicted membrane protein [Function unknown]; Region: COG2510 334406001504 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 334406001505 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 334406001506 calcium/proton exchanger (cax); Region: cax; TIGR00378 334406001507 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 334406001508 YfkD-like protein; Region: YfkD; pfam14167 334406001509 Radical SAM superfamily; Region: Radical_SAM; pfam04055 334406001510 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406001511 FeS/SAM binding site; other site 334406001512 YfkB-like domain; Region: YfkB; pfam08756 334406001513 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 334406001514 Fumarase C-terminus; Region: Fumerase_C; pfam05683 334406001515 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 334406001516 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 334406001517 NodB motif; other site 334406001518 active site 334406001519 catalytic site [active] 334406001520 Cd binding site [ion binding]; other site 334406001521 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 334406001522 endonuclease III; Region: ENDO3c; smart00478 334406001523 minor groove reading motif; other site 334406001524 helix-hairpin-helix signature motif; other site 334406001525 substrate binding pocket [chemical binding]; other site 334406001526 active site 334406001527 TRAM domain; Region: TRAM; pfam01938 334406001528 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 334406001529 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406001530 S-adenosylmethionine binding site [chemical binding]; other site 334406001531 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 334406001532 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 334406001533 dimerization interface 3.5A [polypeptide binding]; other site 334406001534 active site 334406001535 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 334406001536 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406001537 Walker A motif; other site 334406001538 ATP binding site [chemical binding]; other site 334406001539 Walker B motif; other site 334406001540 arginine finger; other site 334406001541 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 334406001542 hypothetical protein; Validated; Region: PRK06748 334406001543 S-methylmethionine transporter; Provisional; Region: PRK11387 334406001544 acetylornithine deacetylase; Validated; Region: PRK08596 334406001545 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 334406001546 metal binding site [ion binding]; metal-binding site 334406001547 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406001548 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406001549 non-specific DNA binding site [nucleotide binding]; other site 334406001550 salt bridge; other site 334406001551 sequence-specific DNA binding site [nucleotide binding]; other site 334406001552 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 334406001553 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 334406001554 putative transposase OrfB; Reviewed; Region: PHA02517 334406001555 HTH-like domain; Region: HTH_21; pfam13276 334406001556 Integrase core domain; Region: rve; pfam00665 334406001557 Integrase core domain; Region: rve_2; pfam13333 334406001558 Protein of unknown function (DUF3969); Region: DUF3969; pfam13108 334406001559 glutaminase A; Region: Gln_ase; TIGR03814 334406001560 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 334406001561 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 334406001562 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 334406001563 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 334406001564 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 334406001565 active site turn [active] 334406001566 phosphorylation site [posttranslational modification] 334406001567 Beta-lactamase; Region: Beta-lactamase; pfam00144 334406001568 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334406001569 Sm and related proteins; Region: Sm_like; cl00259 334406001570 heptamer interface [polypeptide binding]; other site 334406001571 Sm1 motif; other site 334406001572 hexamer interface [polypeptide binding]; other site 334406001573 RNA binding site [nucleotide binding]; other site 334406001574 Sm2 motif; other site 334406001575 Sm and related proteins; Region: Sm_like; cl00259 334406001576 heptamer interface [polypeptide binding]; other site 334406001577 Sm1 motif; other site 334406001578 hexamer interface [polypeptide binding]; other site 334406001579 RNA binding site [nucleotide binding]; other site 334406001580 Sm2 motif; other site 334406001581 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 334406001582 active site 334406001583 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 334406001584 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 334406001585 active site 334406001586 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 334406001587 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334406001588 NAD(P) binding site [chemical binding]; other site 334406001589 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 334406001590 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 334406001591 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 334406001592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334406001593 NAD(P) binding site [chemical binding]; other site 334406001594 active site 334406001595 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 334406001596 active site 334406001597 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 334406001598 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 334406001599 active site 334406001600 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 334406001601 Pyruvate formate lyase 1; Region: PFL1; cd01678 334406001602 coenzyme A binding site [chemical binding]; other site 334406001603 active site 334406001604 catalytic residues [active] 334406001605 glycine loop; other site 334406001606 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 334406001607 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406001608 FeS/SAM binding site; other site 334406001609 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 334406001610 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 334406001611 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 334406001612 YfhE-like protein; Region: YfhE; pfam14152 334406001613 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406001614 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 334406001615 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 334406001616 active site 334406001617 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 334406001618 TIGR01777 family protein; Region: yfcH 334406001619 putative NAD(P) binding site [chemical binding]; other site 334406001620 putative active site [active] 334406001621 recombination regulator RecX; Provisional; Region: recX; PRK14135 334406001622 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 334406001623 YpzG-like protein; Region: YpzG; pfam14139 334406001624 Small acid-soluble spore protein K family; Region: SspK; pfam08176 334406001625 WVELL protein; Region: WVELL; pfam14043 334406001626 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 334406001627 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 334406001628 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 334406001629 minor groove reading motif; other site 334406001630 helix-hairpin-helix signature motif; other site 334406001631 substrate binding pocket [chemical binding]; other site 334406001632 active site 334406001633 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 334406001634 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 334406001635 DNA binding and oxoG recognition site [nucleotide binding] 334406001636 YgaB-like protein; Region: YgaB; pfam14182 334406001637 hypothetical protein; Provisional; Region: PRK13662 334406001638 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334406001639 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334406001640 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 334406001641 Walker A/P-loop; other site 334406001642 ATP binding site [chemical binding]; other site 334406001643 Q-loop/lid; other site 334406001644 ABC transporter signature motif; other site 334406001645 Walker B; other site 334406001646 D-loop; other site 334406001647 H-loop/switch region; other site 334406001648 Predicted membrane protein [Function unknown]; Region: COG4129 334406001649 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 334406001650 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 334406001651 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 334406001652 active site 334406001653 dimer interface [polypeptide binding]; other site 334406001654 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 334406001655 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 334406001656 active site 334406001657 FMN binding site [chemical binding]; other site 334406001658 substrate binding site [chemical binding]; other site 334406001659 3Fe-4S cluster binding site [ion binding]; other site 334406001660 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 334406001661 domain_subunit interface; other site 334406001662 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 334406001663 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 334406001664 inhibitor-cofactor binding pocket; inhibition site 334406001665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406001666 catalytic residue [active] 334406001667 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 334406001668 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406001669 Walker A/P-loop; other site 334406001670 ATP binding site [chemical binding]; other site 334406001671 Q-loop/lid; other site 334406001672 ABC transporter signature motif; other site 334406001673 Walker B; other site 334406001674 D-loop; other site 334406001675 H-loop/switch region; other site 334406001676 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 334406001677 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 334406001678 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 334406001679 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 334406001680 Ion channel; Region: Ion_trans_2; pfam07885 334406001681 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 334406001682 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 334406001683 catalytic triad [active] 334406001684 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 334406001685 metal binding site 2 [ion binding]; metal-binding site 334406001686 putative DNA binding helix; other site 334406001687 metal binding site 1 [ion binding]; metal-binding site 334406001688 dimer interface [polypeptide binding]; other site 334406001689 structural Zn2+ binding site [ion binding]; other site 334406001690 Protein of unknown function (DUF2614); Region: DUF2614; pfam11023 334406001691 hypothetical protein; Provisional; Region: PRK12378 334406001692 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 334406001693 nudix motif; other site 334406001694 Transglycosylase; Region: Transgly; pfam00912 334406001695 Thioredoxin; Region: Thioredoxin_4; pfam13462 334406001696 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 334406001697 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 334406001698 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334406001699 epoxyqueuosine reductase; Region: TIGR00276 334406001700 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 334406001701 Putative amidase domain; Region: Amidase_6; pfam12671 334406001702 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 334406001703 PAS fold; Region: PAS_4; pfam08448 334406001704 PAS domain S-box; Region: sensory_box; TIGR00229 334406001705 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406001706 putative active site [active] 334406001707 heme pocket [chemical binding]; other site 334406001708 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 334406001709 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 334406001710 metal binding site [ion binding]; metal-binding site 334406001711 active site 334406001712 I-site; other site 334406001713 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 334406001714 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 334406001715 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 334406001716 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 334406001717 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334406001718 heme-binding site [chemical binding]; other site 334406001719 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 334406001720 Leucine-rich repeats; other site 334406001721 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334406001722 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334406001723 Substrate binding site [chemical binding]; other site 334406001724 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334406001725 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334406001726 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334406001727 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334406001728 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334406001729 BCCT family transporter; Region: BCCT; pfam02028 334406001730 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 334406001731 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 334406001732 FOG: PKD repeat [General function prediction only]; Region: COG3291 334406001733 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 334406001734 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 334406001735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 334406001736 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 334406001737 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 334406001738 Cache domain; Region: Cache_1; pfam02743 334406001739 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406001740 dimerization interface [polypeptide binding]; other site 334406001741 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 334406001742 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 334406001743 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 334406001744 dimer interface [polypeptide binding]; other site 334406001745 putative CheW interface [polypeptide binding]; other site 334406001746 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 334406001747 PAS domain; Region: PAS; smart00091 334406001748 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406001749 ATP binding site [chemical binding]; other site 334406001750 Mg2+ binding site [ion binding]; other site 334406001751 G-X-G motif; other site 334406001752 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 334406001753 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406001754 active site 334406001755 phosphorylation site [posttranslational modification] 334406001756 intermolecular recognition site; other site 334406001757 dimerization interface [polypeptide binding]; other site 334406001758 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 334406001759 Citrate transporter; Region: CitMHS; pfam03600 334406001760 hypothetical protein; Provisional; Region: PRK12784 334406001761 NosL; Region: NosL; cl01769 334406001762 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 334406001763 Ankyrin repeat; Region: Ank; pfam00023 334406001764 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 334406001765 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 334406001766 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 334406001767 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 334406001768 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406001769 Walker A/P-loop; other site 334406001770 ATP binding site [chemical binding]; other site 334406001771 Q-loop/lid; other site 334406001772 ABC transporter signature motif; other site 334406001773 Walker B; other site 334406001774 D-loop; other site 334406001775 H-loop/switch region; other site 334406001776 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 334406001777 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406001778 dimer interface [polypeptide binding]; other site 334406001779 putative PBP binding loops; other site 334406001780 ABC-ATPase subunit interface; other site 334406001781 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 334406001782 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 334406001783 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406001784 dimer interface [polypeptide binding]; other site 334406001785 conserved gate region; other site 334406001786 putative PBP binding loops; other site 334406001787 ABC-ATPase subunit interface; other site 334406001788 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 334406001789 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 334406001790 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334406001791 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 334406001792 active site 334406001793 metal binding site [ion binding]; metal-binding site 334406001794 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406001795 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406001796 active site 334406001797 phosphorylation site [posttranslational modification] 334406001798 intermolecular recognition site; other site 334406001799 dimerization interface [polypeptide binding]; other site 334406001800 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406001801 DNA binding site [nucleotide binding] 334406001802 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406001803 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406001804 dimer interface [polypeptide binding]; other site 334406001805 phosphorylation site [posttranslational modification] 334406001806 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406001807 ATP binding site [chemical binding]; other site 334406001808 Mg2+ binding site [ion binding]; other site 334406001809 G-X-G motif; other site 334406001810 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 334406001811 putative active site [active] 334406001812 EamA-like transporter family; Region: EamA; pfam00892 334406001813 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 334406001814 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406001815 DNA-binding site [nucleotide binding]; DNA binding site 334406001816 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406001817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406001818 homodimer interface [polypeptide binding]; other site 334406001819 catalytic residue [active] 334406001820 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 334406001821 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406001822 Coenzyme A binding pocket [chemical binding]; other site 334406001823 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406001824 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406001825 dimerization interface [polypeptide binding]; other site 334406001826 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406001827 dimer interface [polypeptide binding]; other site 334406001828 phosphorylation site [posttranslational modification] 334406001829 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406001830 ATP binding site [chemical binding]; other site 334406001831 Mg2+ binding site [ion binding]; other site 334406001832 G-X-G motif; other site 334406001833 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406001834 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406001835 active site 334406001836 phosphorylation site [posttranslational modification] 334406001837 intermolecular recognition site; other site 334406001838 dimerization interface [polypeptide binding]; other site 334406001839 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406001840 DNA binding site [nucleotide binding] 334406001841 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 334406001842 Arrestin_N terminal like; Region: LDB19; pfam13002 334406001843 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406001844 Coenzyme A binding pocket [chemical binding]; other site 334406001845 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 334406001846 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 334406001847 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 334406001848 catalytic loop [active] 334406001849 iron binding site [ion binding]; other site 334406001850 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 334406001851 4Fe-4S binding domain; Region: Fer4; pfam00037 334406001852 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 334406001853 [4Fe-4S] binding site [ion binding]; other site 334406001854 molybdopterin cofactor binding site; other site 334406001855 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 334406001856 molybdopterin cofactor binding site; other site 334406001857 Uncharacterized conserved protein [Function unknown]; Region: COG2427 334406001858 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 334406001859 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 334406001860 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 334406001861 putative active site [active] 334406001862 catalytic site [active] 334406001863 putative metal binding site [ion binding]; other site 334406001864 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 334406001865 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 334406001866 hexamer interface [polypeptide binding]; other site 334406001867 ligand binding site [chemical binding]; other site 334406001868 putative active site [active] 334406001869 NAD(P) binding site [chemical binding]; other site 334406001870 amino acid transporter; Region: 2A0306; TIGR00909 334406001871 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 334406001872 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406001873 dimerization interface [polypeptide binding]; other site 334406001874 putative DNA binding site [nucleotide binding]; other site 334406001875 putative Zn2+ binding site [ion binding]; other site 334406001876 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 334406001877 metal-binding site [ion binding] 334406001878 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 334406001879 Heavy-metal-associated domain; Region: HMA; pfam00403 334406001880 metal-binding site [ion binding] 334406001881 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334406001882 Soluble P-type ATPase [General function prediction only]; Region: COG4087 334406001883 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 334406001884 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 334406001885 active site 334406001886 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406001887 non-specific DNA binding site [nucleotide binding]; other site 334406001888 salt bridge; other site 334406001889 sequence-specific DNA binding site [nucleotide binding]; other site 334406001890 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334406001891 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406001892 binding surface 334406001893 TPR motif; other site 334406001894 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334406001895 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 334406001896 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 334406001897 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 334406001898 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 334406001899 active site 334406001900 Zn binding site [ion binding]; other site 334406001901 Uncharacterized conserved protein [Function unknown]; Region: COG0398 334406001902 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 334406001903 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 334406001904 VanW like protein; Region: VanW; pfam04294 334406001905 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 334406001906 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 334406001907 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 334406001908 Nucleoside recognition; Region: Gate; pfam07670 334406001909 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 334406001910 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406001911 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 334406001912 putative metal binding site [ion binding]; other site 334406001913 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 334406001914 Domain of unknown function DUF21; Region: DUF21; pfam01595 334406001915 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 334406001916 Transporter associated domain; Region: CorC_HlyC; smart01091 334406001917 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 334406001918 Aspartase; Region: Aspartase; cd01357 334406001919 active sites [active] 334406001920 tetramer interface [polypeptide binding]; other site 334406001921 putative transposase OrfB; Reviewed; Region: PHA02517 334406001922 HTH-like domain; Region: HTH_21; pfam13276 334406001923 Integrase core domain; Region: rve; pfam00665 334406001924 Integrase core domain; Region: rve_2; pfam13333 334406001925 L-lactate permease; Region: Lactate_perm; cl00701 334406001926 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 334406001927 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406001928 dimerization interface [polypeptide binding]; other site 334406001929 putative Zn2+ binding site [ion binding]; other site 334406001930 putative DNA binding site [nucleotide binding]; other site 334406001931 acid-soluble spore protein H; Provisional; Region: sspH; PRK01625 334406001932 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 334406001933 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406001934 putative substrate translocation pore; other site 334406001935 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 334406001936 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 334406001937 siderophore binding site; other site 334406001938 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 334406001939 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406001940 ABC-ATPase subunit interface; other site 334406001941 dimer interface [polypeptide binding]; other site 334406001942 putative PBP binding regions; other site 334406001943 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 334406001944 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406001945 ABC-ATPase subunit interface; other site 334406001946 dimer interface [polypeptide binding]; other site 334406001947 putative PBP binding regions; other site 334406001948 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 334406001949 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 334406001950 Walker A/P-loop; other site 334406001951 ATP binding site [chemical binding]; other site 334406001952 Q-loop/lid; other site 334406001953 ABC transporter signature motif; other site 334406001954 Walker B; other site 334406001955 D-loop; other site 334406001956 H-loop/switch region; other site 334406001957 Methyltransferase domain; Region: Methyltransf_31; pfam13847 334406001958 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406001959 S-adenosylmethionine binding site [chemical binding]; other site 334406001960 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 334406001961 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 334406001962 substrate-cofactor binding pocket; other site 334406001963 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406001964 catalytic residue [active] 334406001965 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 334406001966 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 334406001967 NAD binding site [chemical binding]; other site 334406001968 homodimer interface [polypeptide binding]; other site 334406001969 active site 334406001970 putative substrate binding site [chemical binding]; other site 334406001971 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334406001972 active site 334406001973 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 334406001974 nudix motif; other site 334406001975 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 334406001976 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 334406001977 metal ion-dependent adhesion site (MIDAS); other site 334406001978 MoxR-like ATPases [General function prediction only]; Region: COG0714 334406001979 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406001980 Walker A motif; other site 334406001981 ATP binding site [chemical binding]; other site 334406001982 Walker B motif; other site 334406001983 arginine finger; other site 334406001984 cardiolipin synthetase; Reviewed; Region: PRK12452 334406001985 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 334406001986 putative active site [active] 334406001987 catalytic site [active] 334406001988 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 334406001989 putative active site [active] 334406001990 catalytic site [active] 334406001991 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406001992 PAS domain; Region: PAS_9; pfam13426 334406001993 putative active site [active] 334406001994 heme pocket [chemical binding]; other site 334406001995 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 334406001996 metal binding site [ion binding]; metal-binding site 334406001997 active site 334406001998 I-site; other site 334406001999 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 334406002000 Amino acid permease; Region: AA_permease_2; pfam13520 334406002001 Spore germination protein; Region: Spore_permease; cl17796 334406002002 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406002003 DNA-binding site [nucleotide binding]; DNA binding site 334406002004 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 334406002005 UTRA domain; Region: UTRA; pfam07702 334406002006 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 334406002007 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 334406002008 active site turn [active] 334406002009 phosphorylation site [posttranslational modification] 334406002010 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 334406002011 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 334406002012 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 334406002013 Ca binding site [ion binding]; other site 334406002014 active site 334406002015 catalytic site [active] 334406002016 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 334406002017 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 334406002018 Spore germination protein; Region: Spore_permease; cl17796 334406002019 Spore germination protein; Region: Spore_permease; cl17796 334406002020 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 334406002021 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 334406002022 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 334406002023 active site 334406002024 ATP binding site [chemical binding]; other site 334406002025 substrate binding site [chemical binding]; other site 334406002026 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 334406002027 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 334406002028 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334406002029 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 334406002030 Walker A/P-loop; other site 334406002031 ATP binding site [chemical binding]; other site 334406002032 Q-loop/lid; other site 334406002033 ABC transporter signature motif; other site 334406002034 Walker B; other site 334406002035 D-loop; other site 334406002036 H-loop/switch region; other site 334406002037 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334406002038 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 334406002039 substrate binding pocket [chemical binding]; other site 334406002040 membrane-bound complex binding site; other site 334406002041 hinge residues; other site 334406002042 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 334406002043 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406002044 dimer interface [polypeptide binding]; other site 334406002045 conserved gate region; other site 334406002046 putative PBP binding loops; other site 334406002047 ABC-ATPase subunit interface; other site 334406002048 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406002049 dimer interface [polypeptide binding]; other site 334406002050 conserved gate region; other site 334406002051 putative PBP binding loops; other site 334406002052 ABC-ATPase subunit interface; other site 334406002053 S-methylmethionine transporter; Provisional; Region: PRK11387 334406002054 OsmC-like protein; Region: OsmC; pfam02566 334406002055 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 334406002056 nucleotide binding site/active site [active] 334406002057 HIT family signature motif; other site 334406002058 catalytic residue [active] 334406002059 RNA polymerase sigma factor; Provisional; Region: PRK12542 334406002060 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406002061 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406002062 DNA binding residues [nucleotide binding] 334406002063 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 334406002064 Predicted transcriptional regulator [Transcription]; Region: COG2378 334406002065 HTH domain; Region: HTH_11; pfam08279 334406002066 WYL domain; Region: WYL; pfam13280 334406002067 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 334406002068 RibD C-terminal domain; Region: RibD_C; cl17279 334406002069 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 334406002070 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406002071 dimerization interface [polypeptide binding]; other site 334406002072 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406002073 dimer interface [polypeptide binding]; other site 334406002074 phosphorylation site [posttranslational modification] 334406002075 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406002076 ATP binding site [chemical binding]; other site 334406002077 Mg2+ binding site [ion binding]; other site 334406002078 G-X-G motif; other site 334406002079 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406002080 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406002081 active site 334406002082 phosphorylation site [posttranslational modification] 334406002083 intermolecular recognition site; other site 334406002084 dimerization interface [polypeptide binding]; other site 334406002085 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406002086 DNA binding site [nucleotide binding] 334406002087 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334406002088 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 334406002089 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 334406002090 Sulfate transporter family; Region: Sulfate_transp; pfam00916 334406002091 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 334406002092 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 334406002093 Ligand Binding Site [chemical binding]; other site 334406002094 Protein of unknown function (DUF4027); Region: DUF4027; pfam13219 334406002095 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 334406002096 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 334406002097 peptide binding site [polypeptide binding]; other site 334406002098 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 334406002099 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406002100 dimer interface [polypeptide binding]; other site 334406002101 conserved gate region; other site 334406002102 putative PBP binding loops; other site 334406002103 ABC-ATPase subunit interface; other site 334406002104 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 334406002105 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406002106 putative PBP binding loops; other site 334406002107 ABC-ATPase subunit interface; other site 334406002108 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 334406002109 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 334406002110 Walker A/P-loop; other site 334406002111 ATP binding site [chemical binding]; other site 334406002112 Q-loop/lid; other site 334406002113 ABC transporter signature motif; other site 334406002114 Walker B; other site 334406002115 D-loop; other site 334406002116 H-loop/switch region; other site 334406002117 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 334406002118 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 334406002119 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 334406002120 Walker A/P-loop; other site 334406002121 ATP binding site [chemical binding]; other site 334406002122 Q-loop/lid; other site 334406002123 ABC transporter signature motif; other site 334406002124 Walker B; other site 334406002125 D-loop; other site 334406002126 H-loop/switch region; other site 334406002127 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 334406002128 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 334406002129 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406002130 putative substrate translocation pore; other site 334406002131 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406002132 MarR family; Region: MarR; pfam01047 334406002133 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 334406002134 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406002135 putative substrate translocation pore; other site 334406002136 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334406002137 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334406002138 DNA binding site [nucleotide binding] 334406002139 domain linker motif; other site 334406002140 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 334406002141 dimerization interface [polypeptide binding]; other site 334406002142 ligand binding site [chemical binding]; other site 334406002143 sodium binding site [ion binding]; other site 334406002144 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 334406002145 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 334406002146 substrate binding site [chemical binding]; other site 334406002147 dimer interface [polypeptide binding]; other site 334406002148 ATP binding site [chemical binding]; other site 334406002149 D-ribose pyranase; Provisional; Region: PRK11797 334406002150 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 334406002151 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 334406002152 Walker A/P-loop; other site 334406002153 ATP binding site [chemical binding]; other site 334406002154 Q-loop/lid; other site 334406002155 ABC transporter signature motif; other site 334406002156 Walker B; other site 334406002157 D-loop; other site 334406002158 H-loop/switch region; other site 334406002159 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 334406002160 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 334406002161 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 334406002162 TM-ABC transporter signature motif; other site 334406002163 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 334406002164 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 334406002165 ligand binding site [chemical binding]; other site 334406002166 dimerization interface [polypeptide binding]; other site 334406002167 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 334406002168 active site 334406002169 intersubunit interactions; other site 334406002170 catalytic residue [active] 334406002171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 334406002172 Immune inhibitor A peptidase M6; Region: Peptidase_M6; pfam05547 334406002173 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406002174 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406002175 putative substrate translocation pore; other site 334406002176 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 334406002177 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 334406002178 putative NAD(P) binding site [chemical binding]; other site 334406002179 catalytic Zn binding site [ion binding]; other site 334406002180 Ion channel; Region: Ion_trans_2; pfam07885 334406002181 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 334406002182 Zn binding site [ion binding]; other site 334406002183 Neutral sphingomyelinases (nSMase) catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine; Region: nSMase; cd09078 334406002184 putative catalytic site [active] 334406002185 metal binding site A [ion binding]; metal-binding site 334406002186 phosphate binding site [ion binding]; other site 334406002187 metal binding site C [ion binding]; metal-binding site 334406002188 metal binding site B [ion binding]; metal-binding site 334406002189 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 2; Region: PLPDE_III_DSD_D-TA_like_2; cd06813 334406002190 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 334406002191 dimer interface [polypeptide binding]; other site 334406002192 active site 334406002193 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 334406002194 substrate binding site [chemical binding]; other site 334406002195 catalytic residue [active] 334406002196 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 334406002197 FAD binding domain; Region: FAD_binding_4; pfam01565 334406002198 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 334406002199 VanZ like family; Region: VanZ; pfam04892 334406002200 RDD family; Region: RDD; pfam06271 334406002201 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 334406002202 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 334406002203 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 334406002204 dimer interface [polypeptide binding]; other site 334406002205 putative CheW interface [polypeptide binding]; other site 334406002206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 334406002207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 334406002208 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406002209 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406002210 non-specific DNA binding site [nucleotide binding]; other site 334406002211 salt bridge; other site 334406002212 sequence-specific DNA binding site [nucleotide binding]; other site 334406002213 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 334406002214 active site 334406002215 catalytic site [active] 334406002216 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 334406002217 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406002218 putative substrate translocation pore; other site 334406002219 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 334406002220 Archaeal flagella protein; Region: Arch_fla_DE; cl01322 334406002221 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 334406002222 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 334406002223 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 334406002224 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 334406002225 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406002226 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406002227 non-specific DNA binding site [nucleotide binding]; other site 334406002228 salt bridge; other site 334406002229 sequence-specific DNA binding site [nucleotide binding]; other site 334406002230 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406002231 Coenzyme A binding pocket [chemical binding]; other site 334406002232 Protein of unknown function (DUF4022); Region: DUF4022; pfam13214 334406002233 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 334406002234 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 334406002235 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 334406002236 TrkA-N domain; Region: TrkA_N; pfam02254 334406002237 TrkA-C domain; Region: TrkA_C; pfam02080 334406002238 cytochrome aa3 quinol oxidase, subunit IV; Region: QoxD; TIGR02901 334406002239 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 334406002240 Subunit I/III interface [polypeptide binding]; other site 334406002241 Subunit III/IV interface [polypeptide binding]; other site 334406002242 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 334406002243 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 334406002244 D-pathway; other site 334406002245 Putative ubiquinol binding site [chemical binding]; other site 334406002246 Low-spin heme (heme b) binding site [chemical binding]; other site 334406002247 Putative water exit pathway; other site 334406002248 Binuclear center (heme o3/CuB) [ion binding]; other site 334406002249 K-pathway; other site 334406002250 Putative proton exit pathway; other site 334406002251 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 334406002252 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 334406002253 S-methylmethionine transporter; Provisional; Region: PRK11387 334406002254 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 334406002255 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 334406002256 putative active site [active] 334406002257 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 334406002258 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 334406002259 metal binding site [ion binding]; metal-binding site 334406002260 dimer interface [polypeptide binding]; other site 334406002261 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 334406002262 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 334406002263 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 334406002264 Na binding site [ion binding]; other site 334406002265 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 334406002266 spore germination protein (amino acid permease); Region: 2A0309; TIGR00912 334406002267 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 334406002268 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 334406002269 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 334406002270 Nucleoside recognition; Region: Gate; pfam07670 334406002271 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 334406002272 Nucleoside recognition; Region: Gate; pfam07670 334406002273 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 334406002274 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 334406002275 G1 box; other site 334406002276 GTP/Mg2+ binding site [chemical binding]; other site 334406002277 Switch I region; other site 334406002278 G2 box; other site 334406002279 G3 box; other site 334406002280 Switch II region; other site 334406002281 G4 box; other site 334406002282 G5 box; other site 334406002283 FeoA domain; Region: FeoA; pfam04023 334406002284 phosphate binding protein; Region: ptsS_2; TIGR02136 334406002285 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 334406002286 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 334406002287 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406002288 dimer interface [polypeptide binding]; other site 334406002289 conserved gate region; other site 334406002290 putative PBP binding loops; other site 334406002291 ABC-ATPase subunit interface; other site 334406002292 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 334406002293 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406002294 dimer interface [polypeptide binding]; other site 334406002295 conserved gate region; other site 334406002296 putative PBP binding loops; other site 334406002297 ABC-ATPase subunit interface; other site 334406002298 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 334406002299 potential protein location (conserved hypothetical protein [Bacillus cereus NC7401]) that overlaps RNA (16S ribosomal RNA) 334406002300 FOG: CBS domain [General function prediction only]; Region: COG0517 334406002301 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 334406002302 Domain of unknown function (DUF3960); Region: DUF3960; pfam13142 334406002303 Protein of unknown function (DUF3965); Region: DUF3965; pfam13112 334406002304 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406002305 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406002306 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406002307 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 334406002308 Peptidase family M23; Region: Peptidase_M23; pfam01551 334406002309 Putative transcription activator [Transcription]; Region: TenA; COG0819 334406002310 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 334406002311 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 334406002312 Walker A/P-loop; other site 334406002313 ATP binding site [chemical binding]; other site 334406002314 Q-loop/lid; other site 334406002315 ABC transporter signature motif; other site 334406002316 Walker B; other site 334406002317 D-loop; other site 334406002318 H-loop/switch region; other site 334406002319 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 334406002320 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406002321 dimer interface [polypeptide binding]; other site 334406002322 conserved gate region; other site 334406002323 putative PBP binding loops; other site 334406002324 ABC-ATPase subunit interface; other site 334406002325 NMT1/THI5 like; Region: NMT1; pfam09084 334406002326 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 334406002327 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 334406002328 thiamine phosphate binding site [chemical binding]; other site 334406002329 active site 334406002330 pyrophosphate binding site [ion binding]; other site 334406002331 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 334406002332 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 334406002333 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 334406002334 thiS-thiF/thiG interaction site; other site 334406002335 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 334406002336 ThiS interaction site; other site 334406002337 putative active site [active] 334406002338 tetramer interface [polypeptide binding]; other site 334406002339 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 334406002340 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 334406002341 ATP binding site [chemical binding]; other site 334406002342 substrate interface [chemical binding]; other site 334406002343 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 334406002344 dimer interface [polypeptide binding]; other site 334406002345 substrate binding site [chemical binding]; other site 334406002346 ATP binding site [chemical binding]; other site 334406002347 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 334406002348 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 334406002349 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334406002350 Soluble P-type ATPase [General function prediction only]; Region: COG4087 334406002351 potassium-transporting ATPase subunit C; Provisional; Region: PRK13997 334406002352 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 334406002353 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 334406002354 Ligand Binding Site [chemical binding]; other site 334406002355 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 334406002356 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406002357 putative substrate translocation pore; other site 334406002358 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406002359 MarR family; Region: MarR; pfam01047 334406002360 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 334406002361 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 334406002362 active site 334406002363 nucleophile elbow; other site 334406002364 FtsX-like permease family; Region: FtsX; pfam02687 334406002365 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334406002366 FtsX-like permease family; Region: FtsX; pfam02687 334406002367 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406002368 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406002369 Walker A/P-loop; other site 334406002370 ATP binding site [chemical binding]; other site 334406002371 Q-loop/lid; other site 334406002372 ABC transporter signature motif; other site 334406002373 Walker B; other site 334406002374 D-loop; other site 334406002375 H-loop/switch region; other site 334406002376 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 334406002377 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 334406002378 TM-ABC transporter signature motif; other site 334406002379 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 334406002380 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 334406002381 Walker A/P-loop; other site 334406002382 ATP binding site [chemical binding]; other site 334406002383 Q-loop/lid; other site 334406002384 ABC transporter signature motif; other site 334406002385 Walker B; other site 334406002386 D-loop; other site 334406002387 H-loop/switch region; other site 334406002388 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 334406002389 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 334406002390 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 334406002391 putative ligand binding site [chemical binding]; other site 334406002392 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 334406002393 short chain dehydrogenase; Provisional; Region: PRK06701 334406002394 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 334406002395 NAD binding site [chemical binding]; other site 334406002396 metal binding site [ion binding]; metal-binding site 334406002397 active site 334406002398 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 334406002399 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 334406002400 putative substrate binding site [chemical binding]; other site 334406002401 putative ATP binding site [chemical binding]; other site 334406002402 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 334406002403 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 334406002404 substrate binding [chemical binding]; other site 334406002405 active site 334406002406 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 334406002407 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 334406002408 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 334406002409 active site turn [active] 334406002410 phosphorylation site [posttranslational modification] 334406002411 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 334406002412 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334406002413 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334406002414 DNA binding site [nucleotide binding] 334406002415 domain linker motif; other site 334406002416 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 334406002417 dimerization interface [polypeptide binding]; other site 334406002418 ligand binding site [chemical binding]; other site 334406002419 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 334406002420 catalytic residues [active] 334406002421 putative disulfide oxidoreductase; Provisional; Region: PRK03113 334406002422 YhdB-like protein; Region: YhdB; pfam14148 334406002423 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 334406002424 Spore germination protein; Region: Spore_permease; cl17796 334406002425 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 334406002426 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 334406002427 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 334406002428 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 334406002429 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 334406002430 putative FMN binding site [chemical binding]; other site 334406002431 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 334406002432 SpoVR like protein; Region: SpoVR; pfam04293 334406002433 Domain of unknown function DUF87; Region: DUF87; pfam01935 334406002434 HerA helicase [Replication, recombination, and repair]; Region: COG0433 334406002435 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 334406002436 AAA domain; Region: AAA_21; pfam13304 334406002437 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406002438 Walker B; other site 334406002439 D-loop; other site 334406002440 H-loop/switch region; other site 334406002441 High molecular weight glutenin subunit; Region: Glutenin_hmw; pfam03157 334406002442 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 334406002443 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 334406002444 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334406002445 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334406002446 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 334406002447 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 334406002448 active site residue [active] 334406002449 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 334406002450 putative homodimer interface [polypeptide binding]; other site 334406002451 putative homotetramer interface [polypeptide binding]; other site 334406002452 putative metal binding site [ion binding]; other site 334406002453 putative homodimer-homodimer interface [polypeptide binding]; other site 334406002454 putative allosteric switch controlling residues; other site 334406002455 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 334406002456 CPxP motif; other site 334406002457 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 334406002458 active site residue [active] 334406002459 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 334406002460 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406002461 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 334406002462 CPxP motif; other site 334406002463 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 334406002464 CPxP motif; other site 334406002465 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 334406002466 active site residue [active] 334406002467 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 334406002468 active site residue [active] 334406002469 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 334406002470 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 334406002471 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 334406002472 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 334406002473 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 334406002474 NADP binding site [chemical binding]; other site 334406002475 dimer interface [polypeptide binding]; other site 334406002476 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 334406002477 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 334406002478 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 334406002479 PhoU domain; Region: PhoU; pfam01895 334406002480 PhoU domain; Region: PhoU; pfam01895 334406002481 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406002482 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406002483 putative substrate translocation pore; other site 334406002484 Uncharacterized conserved protein [Function unknown]; Region: COG3589 334406002485 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 334406002486 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 334406002487 HTH domain; Region: HTH_11; pfam08279 334406002488 Mga helix-turn-helix domain; Region: Mga; pfam05043 334406002489 PRD domain; Region: PRD; pfam00874 334406002490 PRD domain; Region: PRD; pfam00874 334406002491 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 334406002492 active site 334406002493 P-loop; other site 334406002494 phosphorylation site [posttranslational modification] 334406002495 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 334406002496 active site 334406002497 phosphorylation site [posttranslational modification] 334406002498 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 334406002499 active site 334406002500 methionine cluster; other site 334406002501 phosphorylation site [posttranslational modification] 334406002502 metal binding site [ion binding]; metal-binding site 334406002503 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 334406002504 active site 334406002505 P-loop; other site 334406002506 phosphorylation site [posttranslational modification] 334406002507 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 334406002508 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 334406002509 Uncharacterized conserved protein [Function unknown]; Region: COG3589 334406002510 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 334406002511 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406002512 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406002513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 334406002514 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 334406002515 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334406002516 FtsX-like permease family; Region: FtsX; pfam02687 334406002517 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406002518 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406002519 Walker A/P-loop; other site 334406002520 ATP binding site [chemical binding]; other site 334406002521 Q-loop/lid; other site 334406002522 ABC transporter signature motif; other site 334406002523 Walker B; other site 334406002524 D-loop; other site 334406002525 H-loop/switch region; other site 334406002526 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 334406002527 HlyD family secretion protein; Region: HlyD_3; pfam13437 334406002528 conserved hypothetical integral membrane protein TIGR02206; Region: intg_mem_TP0381 334406002529 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 334406002530 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 334406002531 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 334406002532 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406002533 dimer interface [polypeptide binding]; other site 334406002534 conserved gate region; other site 334406002535 ABC-ATPase subunit interface; other site 334406002536 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 334406002537 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 334406002538 dimanganese center [ion binding]; other site 334406002539 CotJB protein; Region: CotJB; pfam12652 334406002540 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 334406002541 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406002542 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 334406002543 active site 334406002544 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 334406002545 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 334406002546 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 334406002547 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 334406002548 DNA binding site [nucleotide binding] 334406002549 heterodimer interface [polypeptide binding]; other site 334406002550 Uncharacterized conserved protein [Function unknown]; Region: COG3339 334406002551 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 334406002552 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 334406002553 Protein of unknown function (DUF3992); Region: DUF3992; pfam13157 334406002554 Protein of unknown function (DUF3992); Region: DUF3992; pfam13157 334406002555 Protein of unknown function (DUF3992); Region: DUF3992; pfam13157 334406002556 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334406002557 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 334406002558 active site 334406002559 metal binding site [ion binding]; metal-binding site 334406002560 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 334406002561 Interdomain contacts; other site 334406002562 Cytokine receptor motif; other site 334406002563 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 334406002564 amino acid transporter; Region: 2A0306; TIGR00909 334406002565 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 334406002566 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 334406002567 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 334406002568 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 334406002569 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 334406002570 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 334406002571 putative active site [active] 334406002572 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 334406002573 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 334406002574 putative active site [active] 334406002575 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 334406002576 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 334406002577 active site turn [active] 334406002578 phosphorylation site [posttranslational modification] 334406002579 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 334406002580 Uncharacterized conserved protein [Function unknown]; Region: COG3589 334406002581 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 334406002582 DoxX; Region: DoxX; pfam07681 334406002583 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 334406002584 hypothetical protein; Provisional; Region: PRK06770 334406002585 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 334406002586 EamA-like transporter family; Region: EamA; pfam00892 334406002587 EamA-like transporter family; Region: EamA; pfam00892 334406002588 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 334406002589 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 334406002590 AsnC family; Region: AsnC_trans_reg; pfam01037 334406002591 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406002592 Coenzyme A binding pocket [chemical binding]; other site 334406002593 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 334406002594 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 334406002595 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406002596 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406002597 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406002598 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406002599 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406002600 Predicted transcriptional regulators [Transcription]; Region: COG1733 334406002601 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 334406002602 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406002603 MarR family; Region: MarR; pfam01047 334406002604 hypothetical protein; Provisional; Region: PRK06847 334406002605 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 334406002606 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406002607 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 334406002608 putative substrate translocation pore; other site 334406002609 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 334406002610 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 334406002611 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 334406002612 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 334406002613 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 334406002614 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406002615 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406002616 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 334406002617 Cytochrome P450; Region: p450; cl12078 334406002618 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 334406002619 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406002620 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 334406002621 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 334406002622 putative NAD(P) binding site [chemical binding]; other site 334406002623 catalytic Zn binding site [ion binding]; other site 334406002624 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 334406002625 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 334406002626 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406002627 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406002628 Uncharacterized conserved protein [Function unknown]; Region: COG1683 334406002629 CAAX protease self-immunity; Region: Abi; cl00558 334406002630 hypothetical protein; Provisional; Region: PRK12856 334406002631 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 334406002632 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 334406002633 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 334406002634 putative active site [active] 334406002635 putative NTP binding site [chemical binding]; other site 334406002636 putative nucleic acid binding site [nucleotide binding]; other site 334406002637 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 334406002638 active site 334406002639 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 334406002640 Predicted transcriptional regulators [Transcription]; Region: COG1733 334406002641 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 334406002642 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 334406002643 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 334406002644 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 334406002645 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 334406002646 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 334406002647 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 334406002648 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406002649 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406002650 putative substrate translocation pore; other site 334406002651 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 334406002652 conserved cys residue [active] 334406002653 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 334406002654 arginine:agmatin antiporter; Provisional; Region: PRK10644 334406002655 glutamate racemase; Provisional; Region: PRK00865 334406002656 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 334406002657 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 334406002658 tetrameric interface [polypeptide binding]; other site 334406002659 activator binding site; other site 334406002660 NADP binding site [chemical binding]; other site 334406002661 substrate binding site [chemical binding]; other site 334406002662 catalytic residues [active] 334406002663 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334406002664 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 334406002665 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406002666 Walker A/P-loop; other site 334406002667 ATP binding site [chemical binding]; other site 334406002668 Q-loop/lid; other site 334406002669 ABC transporter signature motif; other site 334406002670 Walker B; other site 334406002671 D-loop; other site 334406002672 H-loop/switch region; other site 334406002673 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334406002674 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 334406002675 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 334406002676 Walker A/P-loop; other site 334406002677 ATP binding site [chemical binding]; other site 334406002678 Q-loop/lid; other site 334406002679 ABC transporter signature motif; other site 334406002680 Walker B; other site 334406002681 D-loop; other site 334406002682 H-loop/switch region; other site 334406002683 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334406002684 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 334406002685 substrate binding pocket [chemical binding]; other site 334406002686 membrane-bound complex binding site; other site 334406002687 hinge residues; other site 334406002688 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406002689 dimer interface [polypeptide binding]; other site 334406002690 conserved gate region; other site 334406002691 putative PBP binding loops; other site 334406002692 ABC-ATPase subunit interface; other site 334406002693 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334406002694 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 334406002695 Walker A/P-loop; other site 334406002696 ATP binding site [chemical binding]; other site 334406002697 Q-loop/lid; other site 334406002698 ABC transporter signature motif; other site 334406002699 Walker B; other site 334406002700 D-loop; other site 334406002701 H-loop/switch region; other site 334406002702 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 334406002703 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 334406002704 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 334406002705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 334406002706 hypothetical protein; Provisional; Region: PRK13676 334406002707 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 334406002708 acetolactate synthase; Reviewed; Region: PRK08617 334406002709 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 334406002710 PYR/PP interface [polypeptide binding]; other site 334406002711 dimer interface [polypeptide binding]; other site 334406002712 TPP binding site [chemical binding]; other site 334406002713 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 334406002714 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 334406002715 TPP-binding site [chemical binding]; other site 334406002716 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 334406002717 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 334406002718 active site 334406002719 DNA binding site [nucleotide binding] 334406002720 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 334406002721 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334406002722 active site 334406002723 motif I; other site 334406002724 motif II; other site 334406002725 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 334406002726 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 334406002727 amidase catalytic site [active] 334406002728 Zn binding residues [ion binding]; other site 334406002729 substrate binding site [chemical binding]; other site 334406002730 S-layer homology domain; Region: SLH; pfam00395 334406002731 S-layer homology domain; Region: SLH; pfam00395 334406002732 S-layer homology domain; Region: SLH; pfam00395 334406002733 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 334406002734 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406002735 FeS/SAM binding site; other site 334406002736 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 334406002737 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 334406002738 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 334406002739 acyl-activating enzyme (AAE) consensus motif; other site 334406002740 acyl-activating enzyme (AAE) consensus motif; other site 334406002741 putative AMP binding site [chemical binding]; other site 334406002742 putative active site [active] 334406002743 putative CoA binding site [chemical binding]; other site 334406002744 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 334406002745 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 334406002746 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 334406002747 putative active site [active] 334406002748 putative NTP binding site [chemical binding]; other site 334406002749 putative nucleic acid binding site [nucleotide binding]; other site 334406002750 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 334406002751 active site 334406002752 Collagen binding domain; Region: Collagen_bind; pfam05737 334406002753 Cna protein B-type domain; Region: Cna_B; pfam05738 334406002754 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 334406002755 domain interaction interfaces [polypeptide binding]; other site 334406002756 putative transporter; Provisional; Region: PRK11660 334406002757 Sulfate transporter family; Region: Sulfate_transp; pfam00916 334406002758 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 334406002759 preprotein translocase subunit SecA; Reviewed; Region: PRK09200 334406002760 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 334406002761 ATP binding site [chemical binding]; other site 334406002762 putative Mg++ binding site [ion binding]; other site 334406002763 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 334406002764 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406002765 nucleotide binding region [chemical binding]; other site 334406002766 ATP-binding site [chemical binding]; other site 334406002767 stage V sporulation protein B; Region: spore_V_B; TIGR02900 334406002768 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 334406002769 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 334406002770 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 334406002771 S-layer homology domain; Region: SLH; pfam00395 334406002772 S-layer homology domain; Region: SLH; pfam00395 334406002773 S-layer homology domain; Region: SLH; pfam00395 334406002774 Bacterial Ig-like domain; Region: Big_5; pfam13205 334406002775 S-layer homology domain; Region: SLH; pfam00395 334406002776 S-layer homology domain; Region: SLH; pfam00395 334406002777 S-layer homology domain; Region: SLH; pfam00395 334406002778 DHHW protein; Region: DHHW; pfam14286 334406002779 DHHW protein; Region: DHHW; pfam14286 334406002780 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 334406002781 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 334406002782 enoyl-CoA hydratase; Provisional; Region: PRK07659 334406002783 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 334406002784 substrate binding site [chemical binding]; other site 334406002785 oxyanion hole (OAH) forming residues; other site 334406002786 trimer interface [polypeptide binding]; other site 334406002787 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 334406002788 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334406002789 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 334406002790 metal binding site [ion binding]; metal-binding site 334406002791 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 334406002792 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 334406002793 putative oligomer interface [polypeptide binding]; other site 334406002794 putative active site [active] 334406002795 metal binding site [ion binding]; metal-binding site 334406002796 S-layer homology domain; Region: SLH; pfam00395 334406002797 S-layer homology domain; Region: SLH; pfam00395 334406002798 S-layer homology domain; Region: SLH; pfam00395 334406002799 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 334406002800 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 334406002801 active site 334406002802 metal binding site [ion binding]; metal-binding site 334406002803 Predicted DNA modification methylase [DNA replication, recombination, and repair]; Region: COG1041 334406002804 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406002805 S-adenosylmethionine binding site [chemical binding]; other site 334406002806 Protein of unknown function (DUF2639); Region: DUF2639; pfam11121 334406002807 proline racemase; Provisional; Region: PRK13969 334406002808 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 334406002809 ornithine cyclodeaminase; Validated; Region: PRK08618 334406002810 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 334406002811 NAD(P) binding site [chemical binding]; other site 334406002812 hypothetical protein; Provisional; Region: PRK06770 334406002813 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 334406002814 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406002815 putative substrate translocation pore; other site 334406002816 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 334406002817 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 334406002818 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406002819 ATP binding site [chemical binding]; other site 334406002820 Mg2+ binding site [ion binding]; other site 334406002821 G-X-G motif; other site 334406002822 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 334406002823 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406002824 active site 334406002825 phosphorylation site [posttranslational modification] 334406002826 intermolecular recognition site; other site 334406002827 dimerization interface [polypeptide binding]; other site 334406002828 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 334406002829 Restriction endonuclease; Region: Mrr_cat; pfam04471 334406002830 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 334406002831 Part of AAA domain; Region: AAA_19; pfam13245 334406002832 Family description; Region: UvrD_C_2; pfam13538 334406002833 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 334406002834 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 334406002835 putative metal binding site [ion binding]; other site 334406002836 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 334406002837 putative metal binding site [ion binding]; other site 334406002838 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 334406002839 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 334406002840 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 334406002841 Protein of unknown function (DUF524); Region: DUF524; pfam04411 334406002842 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 334406002843 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 334406002844 Protein of unknown function DUF45; Region: DUF45; pfam01863 334406002845 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 334406002846 Tic20-like protein; Region: Tic20; pfam09685 334406002847 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 334406002848 DNA binding residues [nucleotide binding] 334406002849 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 334406002850 dimer interface [polypeptide binding]; other site 334406002851 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 334406002852 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 334406002853 metal binding site [ion binding]; metal-binding site 334406002854 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 334406002855 replicative DNA helicase; Provisional; Region: PRK06749 334406002856 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 334406002857 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 334406002858 Walker A motif; other site 334406002859 ATP binding site [chemical binding]; other site 334406002860 Walker B motif; other site 334406002861 DNA binding loops [nucleotide binding] 334406002862 Predicted transcriptional regulators [Transcription]; Region: COG1378 334406002863 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 334406002864 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 334406002865 C-terminal domain interface [polypeptide binding]; other site 334406002866 sugar binding site [chemical binding]; other site 334406002867 hypothetical protein; Provisional; Region: PRK10621 334406002868 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 334406002869 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406002870 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406002871 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 334406002872 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406002873 putative substrate translocation pore; other site 334406002874 Predicted permease; Region: DUF318; cl17795 334406002875 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406002876 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 334406002877 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 334406002878 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 334406002879 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 334406002880 CGNR zinc finger; Region: zf-CGNR; pfam11706 334406002881 HPP family; Region: HPP; pfam04982 334406002882 YmzC-like protein; Region: YmzC; pfam14157 334406002883 Domain of unknown function (DUF4259); Region: DUF4259; pfam14078 334406002884 Transcriptional regulators [Transcription]; Region: MarR; COG1846 334406002885 MarR family; Region: MarR_2; pfam12802 334406002886 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 334406002887 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 334406002888 ATP synthase I chain; Region: ATP_synt_I; pfam03899 334406002889 Predicted membrane protein (DUF2306); Region: DUF2306; pfam10067 334406002890 DhaKLM operon coactivator DhaQ; Provisional; Region: PRK14483 334406002891 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 334406002892 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 334406002893 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406002894 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 334406002895 dihydroxyacetone kinase; Provisional; Region: PRK14479 334406002896 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 334406002897 DAK2 domain; Region: Dak2; pfam02734 334406002898 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 334406002899 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334406002900 Zn2+ binding site [ion binding]; other site 334406002901 Mg2+ binding site [ion binding]; other site 334406002902 S-layer homology domain; Region: SLH; pfam00395 334406002903 S-layer homology domain; Region: SLH; pfam00395 334406002904 S-layer homology domain; Region: SLH; pfam00395 334406002905 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 334406002906 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 334406002907 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406002908 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 334406002909 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 334406002910 S-layer homology domain; Region: SLH; pfam00395 334406002911 S-layer homology domain; Region: SLH; pfam00395 334406002912 S-layer homology domain; Region: SLH; pfam00395 334406002913 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 334406002914 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406002915 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 334406002916 active site 334406002917 Heat induced stress protein YflT; Region: YflT; pfam11181 334406002918 Predicted membrane protein [Function unknown]; Region: COG2261 334406002919 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 334406002920 anti sigma factor interaction site; other site 334406002921 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 334406002922 regulatory phosphorylation site [posttranslational modification]; other site 334406002923 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 334406002924 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406002925 ATP binding site [chemical binding]; other site 334406002926 Mg2+ binding site [ion binding]; other site 334406002927 G-X-G motif; other site 334406002928 RNA polymerase sigma-B factor; Region: Sigma_B; TIGR02941 334406002929 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406002930 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 334406002931 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406002932 DNA binding residues [nucleotide binding] 334406002933 Ferritin-like domain; Region: Ferritin; pfam00210 334406002934 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 334406002935 dinuclear metal binding motif [ion binding]; other site 334406002936 Response regulator receiver domain; Region: Response_reg; pfam00072 334406002937 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406002938 active site 334406002939 phosphorylation site [posttranslational modification] 334406002940 intermolecular recognition site; other site 334406002941 dimerization interface [polypeptide binding]; other site 334406002942 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 334406002943 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 334406002944 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 334406002945 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 334406002946 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 334406002947 CHASE3 domain; Region: CHASE3; pfam05227 334406002948 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 334406002949 GAF domain; Region: GAF; pfam01590 334406002950 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406002951 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406002952 dimer interface [polypeptide binding]; other site 334406002953 phosphorylation site [posttranslational modification] 334406002954 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406002955 ATP binding site [chemical binding]; other site 334406002956 Mg2+ binding site [ion binding]; other site 334406002957 G-X-G motif; other site 334406002958 Response regulator receiver domain; Region: Response_reg; pfam00072 334406002959 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406002960 active site 334406002961 phosphorylation site [posttranslational modification] 334406002962 intermolecular recognition site; other site 334406002963 dimerization interface [polypeptide binding]; other site 334406002964 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cl00206 334406002965 Protein of unknown function (DUF4028); Region: DUF4028; pfam13220 334406002966 hypothetical protein; Provisional; Region: PRK12856 334406002967 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 334406002968 NADP binding site [chemical binding]; other site 334406002969 dimer interface [polypeptide binding]; other site 334406002970 Enoylreductase; Region: PKS_ER; smart00829 334406002971 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 334406002972 Protein of unknown function (DUF2639); Region: DUF2639; pfam11121 334406002973 YhzD-like protein; Region: YhzD; pfam14120 334406002974 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 334406002975 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334406002976 active site 334406002977 metal binding site [ion binding]; metal-binding site 334406002978 DNA binding site [nucleotide binding] 334406002979 AAA domain; Region: AAA_27; pfam13514 334406002980 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406002981 Q-loop/lid; other site 334406002982 ABC transporter signature motif; other site 334406002983 Walker B; other site 334406002984 D-loop; other site 334406002985 H-loop/switch region; other site 334406002986 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 334406002987 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 334406002988 generic binding surface I; other site 334406002989 generic binding surface II; other site 334406002990 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334406002991 Zn2+ binding site [ion binding]; other site 334406002992 Mg2+ binding site [ion binding]; other site 334406002993 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406002994 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406002995 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 334406002996 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406002997 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 334406002998 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406002999 Zn binding site [ion binding]; other site 334406003000 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 334406003001 Zn binding site [ion binding]; other site 334406003002 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 334406003003 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406003004 Zn binding site [ion binding]; other site 334406003005 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 334406003006 Zn binding site [ion binding]; other site 334406003007 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; pfam09965 334406003008 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334406003009 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 334406003010 Sporulation protein YhaL; Region: Spore_YhaL; pfam14147 334406003011 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 334406003012 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 334406003013 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 334406003014 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 334406003015 amphipathic channel; other site 334406003016 Asn-Pro-Ala signature motifs; other site 334406003017 glycerol kinase; Provisional; Region: glpK; PRK00047 334406003018 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 334406003019 N- and C-terminal domain interface [polypeptide binding]; other site 334406003020 active site 334406003021 MgATP binding site [chemical binding]; other site 334406003022 catalytic site [active] 334406003023 metal binding site [ion binding]; metal-binding site 334406003024 glycerol binding site [chemical binding]; other site 334406003025 homotetramer interface [polypeptide binding]; other site 334406003026 homodimer interface [polypeptide binding]; other site 334406003027 FBP binding site [chemical binding]; other site 334406003028 protein IIAGlc interface [polypeptide binding]; other site 334406003029 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 334406003030 putative transposase OrfB; Reviewed; Region: PHA02517 334406003031 HTH-like domain; Region: HTH_21; pfam13276 334406003032 Integrase core domain; Region: rve; pfam00665 334406003033 Integrase core domain; Region: rve_2; pfam13333 334406003034 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334406003035 Helix-turn-helix domain; Region: HTH_28; pfam13518 334406003036 Helix-turn-helix domain; Region: HTH_28; pfam13518 334406003037 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 334406003038 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406003039 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406003040 DNA binding residues [nucleotide binding] 334406003041 lineage-specific thermal regulator protein; Provisional; Region: lstR; PRK09416 334406003042 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406003043 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 334406003044 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 334406003045 Part of AAA domain; Region: AAA_19; pfam13245 334406003046 Family description; Region: UvrD_C_2; pfam13538 334406003047 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 334406003048 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 334406003049 Protein of unknown function (DUF1878); Region: DUF1878; pfam08963 334406003050 transcriptional regulator Hpr; Provisional; Region: PRK13777 334406003051 MarR family; Region: MarR; pfam01047 334406003052 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 334406003053 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 334406003054 HIT family signature motif; other site 334406003055 catalytic residue [active] 334406003056 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334406003057 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334406003058 Walker A/P-loop; other site 334406003059 ATP binding site [chemical binding]; other site 334406003060 Q-loop/lid; other site 334406003061 ABC transporter signature motif; other site 334406003062 Walker B; other site 334406003063 D-loop; other site 334406003064 H-loop/switch region; other site 334406003065 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 334406003066 EcsC protein family; Region: EcsC; pfam12787 334406003067 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406003068 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406003069 Uncharacterized conserved protein [Function unknown]; Region: COG3402 334406003070 Predicted membrane protein [Function unknown]; Region: COG3428 334406003071 Bacterial PH domain; Region: DUF304; pfam03703 334406003072 Bacterial PH domain; Region: DUF304; cl01348 334406003073 Bacterial PH domain; Region: DUF304; pfam03703 334406003074 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 334406003075 MAEBL; Provisional; Region: PTZ00121 334406003076 Uncharacterized conserved protein [Function unknown]; Region: COG3402 334406003077 Predicted membrane protein [Function unknown]; Region: COG3428 334406003078 Bacterial PH domain; Region: DUF304; pfam03703 334406003079 Bacterial PH domain; Region: DUF304; pfam03703 334406003080 Bacterial PH domain; Region: DUF304; pfam03703 334406003081 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 334406003082 Transglycosylase; Region: Transgly; pfam00912 334406003083 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 334406003084 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334406003085 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 334406003086 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 334406003087 substrate binding site [chemical binding]; other site 334406003088 active site 334406003089 ferrochelatase; Provisional; Region: PRK12435 334406003090 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 334406003091 C-terminal domain interface [polypeptide binding]; other site 334406003092 active site 334406003093 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 334406003094 active site 334406003095 N-terminal domain interface [polypeptide binding]; other site 334406003096 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 334406003097 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334406003098 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334406003099 Protein of unknown function (DUF4026); Region: DUF4026; pfam13218 334406003100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 334406003101 Fn3 associated; Region: Fn3_assoc; pfam13287 334406003102 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 334406003103 generic binding surface II; other site 334406003104 generic binding surface I; other site 334406003105 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 334406003106 putative active site [active] 334406003107 putative catalytic site [active] 334406003108 putative Mg binding site IVb [ion binding]; other site 334406003109 putative phosphate binding site [ion binding]; other site 334406003110 putative DNA binding site [nucleotide binding]; other site 334406003111 putative Mg binding site IVa [ion binding]; other site 334406003112 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406003113 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406003114 Predicted membrane protein [Function unknown]; Region: COG1511 334406003115 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 334406003116 Polyhydroxyalkanoic acid inclusion protein (PhaP_Bmeg); Region: PhaP_Bmeg; cl09820 334406003117 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 334406003118 trimer interface [polypeptide binding]; other site 334406003119 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 334406003120 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 334406003121 DinB superfamily; Region: DinB_2; pfam12867 334406003122 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 334406003123 Predicted transcriptional regulator [Transcription]; Region: COG2378 334406003124 HTH domain; Region: HTH_11; pfam08279 334406003125 WYL domain; Region: WYL; pfam13280 334406003126 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334406003127 DNA binding site [nucleotide binding] 334406003128 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 334406003129 domain linker motif; other site 334406003130 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 334406003131 putative dimerization interface [polypeptide binding]; other site 334406003132 putative ligand binding site [chemical binding]; other site 334406003133 YhfH-like protein; Region: YhfH; pfam14149 334406003134 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 334406003135 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 334406003136 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 334406003137 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 334406003138 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 334406003139 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 334406003140 acyl-activating enzyme (AAE) consensus motif; other site 334406003141 putative AMP binding site [chemical binding]; other site 334406003142 putative active site [active] 334406003143 putative CoA binding site [chemical binding]; other site 334406003144 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334406003145 heme-binding site [chemical binding]; other site 334406003146 S-layer homology domain; Region: SLH; pfam00395 334406003147 S-layer homology domain; Region: SLH; pfam00395 334406003148 S-layer homology domain; Region: SLH; pfam00395 334406003149 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 334406003150 RHS Repeat; Region: RHS_repeat; pfam05593 334406003151 RHS protein; Region: RHS; pfam03527 334406003152 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 334406003153 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 334406003154 RHS Repeat; Region: RHS_repeat; cl11982 334406003155 RHS protein; Region: RHS; pfam03527 334406003156 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 334406003157 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 334406003158 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 334406003159 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 334406003160 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 334406003161 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 334406003162 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334406003163 putative active site [active] 334406003164 putative metal binding site [ion binding]; other site 334406003165 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334406003166 Zn2+ binding site [ion binding]; other site 334406003167 Mg2+ binding site [ion binding]; other site 334406003168 Putative zinc-finger; Region: zf-HC2; pfam13490 334406003169 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 334406003170 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 334406003171 RNA polymerase sigma factor; Provisional; Region: PRK12541 334406003172 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406003173 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406003174 DNA binding residues [nucleotide binding] 334406003175 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334406003176 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 334406003177 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334406003178 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 334406003179 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 334406003180 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406003181 active site 334406003182 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406003183 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406003184 dimer interface [polypeptide binding]; other site 334406003185 phosphorylation site [posttranslational modification] 334406003186 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406003187 ATP binding site [chemical binding]; other site 334406003188 Mg2+ binding site [ion binding]; other site 334406003189 G-X-G motif; other site 334406003190 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406003191 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406003192 active site 334406003193 phosphorylation site [posttranslational modification] 334406003194 intermolecular recognition site; other site 334406003195 dimerization interface [polypeptide binding]; other site 334406003196 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406003197 DNA binding site [nucleotide binding] 334406003198 CAAX protease self-immunity; Region: Abi; pfam02517 334406003199 Peptidase family M48; Region: Peptidase_M48; pfam01435 334406003200 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 334406003201 EamA-like transporter family; Region: EamA; pfam00892 334406003202 EamA-like transporter family; Region: EamA; pfam00892 334406003203 S-layer homology domain; Region: SLH; pfam00395 334406003204 S-layer homology domain; Region: SLH; pfam00395 334406003205 S-layer homology domain; Region: SLH; pfam00395 334406003206 S-layer homology domain; Region: SLH; pfam00395 334406003207 S-layer homology domain; Region: SLH; pfam00395 334406003208 S-layer homology domain; Region: SLH; pfam00395 334406003209 S-layer homology domain; Region: SLH; pfam00395 334406003210 S-layer homology domain; Region: SLH; pfam00395 334406003211 S-layer homology domain; Region: SLH; pfam00395 334406003212 malate synthase A; Region: malate_syn_A; TIGR01344 334406003213 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 334406003214 active site 334406003215 isocitrate lyase; Provisional; Region: PRK15063 334406003216 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 334406003217 tetramer interface [polypeptide binding]; other site 334406003218 active site 334406003219 Mg2+/Mn2+ binding site [ion binding]; other site 334406003220 Phosphotransferase enzyme family; Region: APH; pfam01636 334406003221 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 334406003222 active site 334406003223 substrate binding site [chemical binding]; other site 334406003224 ATP binding site [chemical binding]; other site 334406003225 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 334406003226 DNA-binding site [nucleotide binding]; DNA binding site 334406003227 RNA-binding motif; other site 334406003228 ComK protein; Region: ComK; pfam06338 334406003229 Domain of unknown function (DUF4306); Region: DUF4306; pfam14154 334406003230 Domain of unknown function (DUF4306); Region: DUF4306; pfam14154 334406003231 Uncharacterized conserved protein [Function unknown]; Region: COG0398 334406003232 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 334406003233 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 334406003234 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 334406003235 Catalytic site [active] 334406003236 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 334406003237 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 334406003238 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 334406003239 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 334406003240 Part of AAA domain; Region: AAA_19; pfam13245 334406003241 Family description; Region: UvrD_C_2; pfam13538 334406003242 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 334406003243 hypothetical protein; Provisional; Region: PRK07758 334406003244 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 334406003245 Protein of unknown function (DUF2772); Region: DUF2772; pfam10970 334406003246 Spore germination protein GerPC; Region: GerPC; pfam10737 334406003247 Protein of unknown function (DUF2539); Region: DUF2539; pfam10803 334406003248 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 334406003249 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 334406003250 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 334406003251 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 334406003252 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 334406003253 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 334406003254 inhibitor-cofactor binding pocket; inhibition site 334406003255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406003256 catalytic residue [active] 334406003257 hypothetical protein; Provisional; Region: PRK13673 334406003258 Protein of unknown function (DUF2777); Region: DUF2777; pfam10949 334406003259 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 334406003260 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 334406003261 dimer interface [polypeptide binding]; other site 334406003262 active site 334406003263 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 334406003264 Ligand Binding Site [chemical binding]; other site 334406003265 Molecular Tunnel; other site 334406003266 ferrochelatase; Provisional; Region: PRK12435 334406003267 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 334406003268 C-terminal domain interface [polypeptide binding]; other site 334406003269 active site 334406003270 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 334406003271 active site 334406003272 N-terminal domain interface [polypeptide binding]; other site 334406003273 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 334406003274 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 334406003275 tetramer interface [polypeptide binding]; other site 334406003276 heme binding pocket [chemical binding]; other site 334406003277 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 334406003278 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 334406003279 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 334406003280 active site 334406003281 catalytic site [active] 334406003282 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406003283 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406003284 non-specific DNA binding site [nucleotide binding]; other site 334406003285 salt bridge; other site 334406003286 sequence-specific DNA binding site [nucleotide binding]; other site 334406003287 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334406003288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 334406003289 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 334406003290 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 334406003291 S1 domain; Region: S1_2; pfam13509 334406003292 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 334406003293 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 334406003294 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334406003295 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406003296 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406003297 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 334406003298 Protein of unknown function (DUF3813); Region: DUF3813; pfam12758 334406003299 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406003300 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334406003301 active site 334406003302 motif I; other site 334406003303 motif II; other site 334406003304 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 334406003305 YjzC-like protein; Region: YjzC; pfam14168 334406003306 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 334406003307 Clp amino terminal domain; Region: Clp_N; pfam02861 334406003308 Clp amino terminal domain; Region: Clp_N; pfam02861 334406003309 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406003310 Walker A motif; other site 334406003311 ATP binding site [chemical binding]; other site 334406003312 Walker B motif; other site 334406003313 arginine finger; other site 334406003314 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406003315 Walker A motif; other site 334406003316 ATP binding site [chemical binding]; other site 334406003317 Walker B motif; other site 334406003318 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 334406003319 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 334406003320 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 334406003321 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 334406003322 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 334406003323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334406003324 NAD(P) binding site [chemical binding]; other site 334406003325 active site 334406003326 ComZ; Region: ComZ; pfam10815 334406003327 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 334406003328 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 334406003329 dimer interface [polypeptide binding]; other site 334406003330 active site 334406003331 CoA binding pocket [chemical binding]; other site 334406003332 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 334406003333 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 334406003334 dimer interface [polypeptide binding]; other site 334406003335 active site 334406003336 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; pfam10026 334406003337 Protein of unknown function (DUF3603); Region: DUF3603; pfam12227 334406003338 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 334406003339 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 334406003340 active site 334406003341 HIGH motif; other site 334406003342 dimer interface [polypeptide binding]; other site 334406003343 KMSKS motif; other site 334406003344 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 334406003345 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 334406003346 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 334406003347 peptide binding site [polypeptide binding]; other site 334406003348 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 334406003349 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406003350 dimer interface [polypeptide binding]; other site 334406003351 conserved gate region; other site 334406003352 putative PBP binding loops; other site 334406003353 ABC-ATPase subunit interface; other site 334406003354 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 334406003355 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 334406003356 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406003357 dimer interface [polypeptide binding]; other site 334406003358 conserved gate region; other site 334406003359 putative PBP binding loops; other site 334406003360 ABC-ATPase subunit interface; other site 334406003361 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 334406003362 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 334406003363 Walker A/P-loop; other site 334406003364 ATP binding site [chemical binding]; other site 334406003365 Q-loop/lid; other site 334406003366 ABC transporter signature motif; other site 334406003367 Walker B; other site 334406003368 D-loop; other site 334406003369 H-loop/switch region; other site 334406003370 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 334406003371 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 334406003372 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 334406003373 Walker A/P-loop; other site 334406003374 ATP binding site [chemical binding]; other site 334406003375 Q-loop/lid; other site 334406003376 ABC transporter signature motif; other site 334406003377 Walker B; other site 334406003378 D-loop; other site 334406003379 H-loop/switch region; other site 334406003380 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 334406003381 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 334406003382 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 334406003383 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 334406003384 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 334406003385 peptide binding site [polypeptide binding]; other site 334406003386 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 334406003387 ArsC family; Region: ArsC; pfam03960 334406003388 putative catalytic residues [active] 334406003389 thiol/disulfide switch; other site 334406003390 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 334406003391 adaptor protein; Provisional; Region: PRK02315 334406003392 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 334406003393 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 334406003394 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 334406003395 putative active site [active] 334406003396 catalytic site [active] 334406003397 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 334406003398 putative active site [active] 334406003399 catalytic site [active] 334406003400 Competence protein CoiA-like family; Region: CoiA; cl11541 334406003401 oligoendopeptidase F; Region: pepF; TIGR00181 334406003402 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 334406003403 active site 334406003404 Zn binding site [ion binding]; other site 334406003405 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 334406003406 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 334406003407 catalytic residues [active] 334406003408 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 334406003409 apolar tunnel; other site 334406003410 heme binding site [chemical binding]; other site 334406003411 dimerization interface [polypeptide binding]; other site 334406003412 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 334406003413 putative active site [active] 334406003414 putative metal binding residues [ion binding]; other site 334406003415 signature motif; other site 334406003416 putative triphosphate binding site [ion binding]; other site 334406003417 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 334406003418 synthetase active site [active] 334406003419 NTP binding site [chemical binding]; other site 334406003420 metal binding site [ion binding]; metal-binding site 334406003421 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 334406003422 ATP-NAD kinase; Region: NAD_kinase; pfam01513 334406003423 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 334406003424 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 334406003425 active site 334406003426 Peptidase_G2, IMC autoproteolytic cleavage domain; Region: Peptidase_G2; pfam11962 334406003427 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 334406003428 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 334406003429 active site 334406003430 metal binding site [ion binding]; metal-binding site 334406003431 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 334406003432 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 334406003433 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 334406003434 active site 334406003435 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406003436 S-adenosylmethionine binding site [chemical binding]; other site 334406003437 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 334406003438 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 334406003439 putative metal binding site; other site 334406003440 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406003441 binding surface 334406003442 TPR motif; other site 334406003443 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 334406003444 binding surface 334406003445 TPR motif; other site 334406003446 Methyltransferase domain; Region: Methyltransf_23; pfam13489 334406003447 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406003448 S-adenosylmethionine binding site [chemical binding]; other site 334406003449 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 334406003450 catalytic residues [active] 334406003451 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 334406003452 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 334406003453 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 334406003454 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 334406003455 active site 334406003456 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 334406003457 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 334406003458 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 334406003459 NAD binding site [chemical binding]; other site 334406003460 substrate binding site [chemical binding]; other site 334406003461 homodimer interface [polypeptide binding]; other site 334406003462 active site 334406003463 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 334406003464 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 334406003465 NADP binding site [chemical binding]; other site 334406003466 active site 334406003467 putative substrate binding site [chemical binding]; other site 334406003468 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 334406003469 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 334406003470 NAD binding site [chemical binding]; other site 334406003471 homotetramer interface [polypeptide binding]; other site 334406003472 homodimer interface [polypeptide binding]; other site 334406003473 substrate binding site [chemical binding]; other site 334406003474 active site 334406003475 Spore coat protein CotO; Region: Spore_coat_CotO; pfam14153 334406003476 Spore coat protein Z; Region: Spore-coat_CotZ; pfam10612 334406003477 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 334406003478 Spore coat protein Z; Region: Spore-coat_CotZ; pfam10612 334406003479 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 334406003480 Part of AAA domain; Region: AAA_19; pfam13245 334406003481 Family description; Region: UvrD_C_2; pfam13538 334406003482 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 334406003483 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406003484 Coenzyme A binding pocket [chemical binding]; other site 334406003485 hypothetical protein; Provisional; Region: PRK13679 334406003486 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 334406003487 Putative esterase; Region: Esterase; pfam00756 334406003488 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 334406003489 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 334406003490 EamA-like transporter family; Region: EamA; pfam00892 334406003491 EamA-like transporter family; Region: EamA; pfam00892 334406003492 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 334406003493 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 334406003494 Pectate lyase; Region: Pectate_lyase; pfam03211 334406003495 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 334406003496 Na binding site [ion binding]; other site 334406003497 anthranilate synthase component I; Provisional; Region: PRK13570 334406003498 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 334406003499 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 334406003500 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 334406003501 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 334406003502 glutamine binding [chemical binding]; other site 334406003503 catalytic triad [active] 334406003504 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 334406003505 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 334406003506 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 334406003507 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 334406003508 active site 334406003509 ribulose/triose binding site [chemical binding]; other site 334406003510 phosphate binding site [ion binding]; other site 334406003511 substrate (anthranilate) binding pocket [chemical binding]; other site 334406003512 product (indole) binding pocket [chemical binding]; other site 334406003513 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 334406003514 active site 334406003515 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 334406003516 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 334406003517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406003518 catalytic residue [active] 334406003519 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 334406003520 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 334406003521 substrate binding site [chemical binding]; other site 334406003522 active site 334406003523 catalytic residues [active] 334406003524 heterodimer interface [polypeptide binding]; other site 334406003525 Protein of unknown function (DUF4029); Region: DUF4029; pfam13221 334406003526 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 334406003527 L-lactate permease; Region: Lactate_perm; cl00701 334406003528 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 334406003529 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 334406003530 catalytic residues [active] 334406003531 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 334406003532 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 334406003533 Double zinc ribbon; Region: DZR; pfam12773 334406003534 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334406003535 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 334406003536 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334406003537 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 334406003538 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406003539 Coenzyme A binding pocket [chemical binding]; other site 334406003540 Protein of unknown function (DUF3908); Region: DUF3908; pfam13048 334406003541 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406003542 S-adenosylmethionine binding site [chemical binding]; other site 334406003543 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 334406003544 NADPH bind site [chemical binding]; other site 334406003545 putative FMN binding site [chemical binding]; other site 334406003546 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 334406003547 putative FMN binding site [chemical binding]; other site 334406003548 NADPH bind site [chemical binding]; other site 334406003549 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 334406003550 YcaO-like family; Region: YcaO; pfam02624 334406003551 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 334406003552 putative thiazole-containing bacteriocin maturation protein; Region: ocin_ThiF_like; TIGR03693 334406003553 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 334406003554 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 334406003555 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 334406003556 E3 interaction surface; other site 334406003557 lipoyl attachment site [posttranslational modification]; other site 334406003558 e3 binding domain; Region: E3_binding; pfam02817 334406003559 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 334406003560 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 334406003561 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 334406003562 TPP-binding site [chemical binding]; other site 334406003563 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 334406003564 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406003565 salt bridge; other site 334406003566 non-specific DNA binding site [nucleotide binding]; other site 334406003567 sequence-specific DNA binding site [nucleotide binding]; other site 334406003568 Domain of unknown function (DUF3976); Region: DUF3976; pfam13121 334406003569 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 334406003570 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406003571 S-adenosylmethionine binding site [chemical binding]; other site 334406003572 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 334406003573 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334406003574 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 334406003575 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 334406003576 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 334406003577 Catalytic site [active] 334406003578 Camelysin metallo-endopeptidase; Region: Peptidase_M73; cl13780 334406003579 Domain of unknown function (DUF4047); Region: DUF4047; pfam13256 334406003580 Camelysin metallo-endopeptidase; Region: Peptidase_M73; pfam12389 334406003581 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406003582 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406003583 non-specific DNA binding site [nucleotide binding]; other site 334406003584 salt bridge; other site 334406003585 sequence-specific DNA binding site [nucleotide binding]; other site 334406003586 Anti-repressor SinI; Region: SinI; pfam08671 334406003587 Anti-repressor SinI; Region: SinI; pfam08671 334406003588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 334406003589 Immune inhibitor A peptidase M6; Region: Peptidase_M6; pfam05547 334406003590 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 334406003591 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 334406003592 NAD(P) binding site [chemical binding]; other site 334406003593 catalytic residues [active] 334406003594 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 334406003595 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 334406003596 Walker A/P-loop; other site 334406003597 ATP binding site [chemical binding]; other site 334406003598 Q-loop/lid; other site 334406003599 ABC transporter signature motif; other site 334406003600 Walker B; other site 334406003601 D-loop; other site 334406003602 H-loop/switch region; other site 334406003603 TOBE domain; Region: TOBE_2; pfam08402 334406003604 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 334406003605 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406003606 dimer interface [polypeptide binding]; other site 334406003607 conserved gate region; other site 334406003608 putative PBP binding loops; other site 334406003609 ABC-ATPase subunit interface; other site 334406003610 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 334406003611 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406003612 dimer interface [polypeptide binding]; other site 334406003613 conserved gate region; other site 334406003614 putative PBP binding loops; other site 334406003615 ABC-ATPase subunit interface; other site 334406003616 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 334406003617 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 334406003618 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 334406003619 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 334406003620 active site 334406003621 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 334406003622 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 334406003623 ABC-2 type transporter; Region: ABC2_membrane; cl17235 334406003624 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 334406003625 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 334406003626 active site 334406003627 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 334406003628 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 334406003629 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 334406003630 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 334406003631 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 334406003632 Cysteine-rich domain; Region: CCG; pfam02754 334406003633 Cysteine-rich domain; Region: CCG; pfam02754 334406003634 FAD binding domain; Region: FAD_binding_4; pfam01565 334406003635 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 334406003636 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 334406003637 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 334406003638 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 334406003639 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 334406003640 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 334406003641 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406003642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406003643 active site 334406003644 phosphorylation site [posttranslational modification] 334406003645 intermolecular recognition site; other site 334406003646 dimerization interface [polypeptide binding]; other site 334406003647 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406003648 DNA binding site [nucleotide binding] 334406003649 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 334406003650 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406003651 dimerization interface [polypeptide binding]; other site 334406003652 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406003653 dimer interface [polypeptide binding]; other site 334406003654 phosphorylation site [posttranslational modification] 334406003655 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406003656 ATP binding site [chemical binding]; other site 334406003657 Mg2+ binding site [ion binding]; other site 334406003658 G-X-G motif; other site 334406003659 Transcriptional regulators [Transcription]; Region: FadR; COG2186 334406003660 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406003661 DNA-binding site [nucleotide binding]; DNA binding site 334406003662 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 334406003663 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 334406003664 Cysteine-rich domain; Region: CCG; pfam02754 334406003665 Cysteine-rich domain; Region: CCG; pfam02754 334406003666 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 334406003667 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 334406003668 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 334406003669 Uncharacterized conserved protein [Function unknown]; Region: COG1556 334406003670 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 334406003671 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 334406003672 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 334406003673 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 334406003674 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 334406003675 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 334406003676 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 334406003677 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 334406003678 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 334406003679 dimer interaction site [polypeptide binding]; other site 334406003680 substrate-binding tunnel; other site 334406003681 active site 334406003682 catalytic site [active] 334406003683 substrate binding site [chemical binding]; other site 334406003684 Polyhydroxyalkanoic acid inclusion protein (PhaP_Bmeg); Region: PhaP_Bmeg; cl09820 334406003685 poly-beta-hydroxybutyrate-responsive repressor; Region: repress_PhaQ; TIGR02719 334406003686 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406003687 polyhydroxyalkanoic acid synthase, PhaR subunit; Region: phaR_Bmeg; TIGR02132 334406003688 acetoacetyl-CoA reductase; Provisional; Region: PRK12935 334406003689 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 334406003690 NAD(P) binding site [chemical binding]; other site 334406003691 homotetramer interface [polypeptide binding]; other site 334406003692 homodimer interface [polypeptide binding]; other site 334406003693 active site 334406003694 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 334406003695 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 334406003696 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 334406003697 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 334406003698 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 334406003699 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 334406003700 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 334406003701 Protein of unknown function (DUF3905); Region: DUF3905; pfam13045 334406003702 putative 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate-binding protein; Region: phnS2; TIGR03261 334406003703 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 334406003704 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 334406003705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406003706 Walker A/P-loop; other site 334406003707 ATP binding site [chemical binding]; other site 334406003708 Q-loop/lid; other site 334406003709 ABC transporter signature motif; other site 334406003710 Walker B; other site 334406003711 D-loop; other site 334406003712 H-loop/switch region; other site 334406003713 TOBE domain; Region: TOBE_2; pfam08402 334406003714 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 334406003715 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406003716 dimer interface [polypeptide binding]; other site 334406003717 conserved gate region; other site 334406003718 putative PBP binding loops; other site 334406003719 ABC-ATPase subunit interface; other site 334406003720 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406003721 dimer interface [polypeptide binding]; other site 334406003722 conserved gate region; other site 334406003723 putative PBP binding loops; other site 334406003724 ABC-ATPase subunit interface; other site 334406003725 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 334406003726 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406003727 motif II; other site 334406003728 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 334406003729 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334406003730 catalytic residue [active] 334406003731 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 334406003732 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 334406003733 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 334406003734 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 334406003735 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334406003736 heme-binding site [chemical binding]; other site 334406003737 Leucine rich repeat; Region: LRR_8; pfam13855 334406003738 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 334406003739 Leucine-rich repeats; other site 334406003740 Leucine rich repeat; Region: LRR_8; pfam13855 334406003741 Substrate binding site [chemical binding]; other site 334406003742 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334406003743 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334406003744 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334406003745 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334406003746 S-layer homology domain; Region: SLH; pfam00395 334406003747 S-layer homology domain; Region: SLH; pfam00395 334406003748 S-layer homology domain; Region: SLH; pfam00395 334406003749 hypothetical protein; Validated; Region: PRK06755 334406003750 intersubunit interface [polypeptide binding]; other site 334406003751 active site 334406003752 Zn2+ binding site [ion binding]; other site 334406003753 FOG: CBS domain [General function prediction only]; Region: COG0517 334406003754 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 334406003755 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 334406003756 NodB motif; other site 334406003757 putative active site [active] 334406003758 putative catalytic site [active] 334406003759 Zn binding site [ion binding]; other site 334406003760 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 334406003761 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 334406003762 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406003763 dimer interface [polypeptide binding]; other site 334406003764 phosphorylation site [posttranslational modification] 334406003765 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406003766 ATP binding site [chemical binding]; other site 334406003767 Mg2+ binding site [ion binding]; other site 334406003768 G-X-G motif; other site 334406003769 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406003770 MarR family; Region: MarR; pfam01047 334406003771 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 334406003772 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 334406003773 active site 334406003774 Zn binding site [ion binding]; other site 334406003775 DinB superfamily; Region: DinB_2; pfam12867 334406003776 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 334406003777 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406003778 dimer interface [polypeptide binding]; other site 334406003779 phosphorylation site [posttranslational modification] 334406003780 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406003781 ATP binding site [chemical binding]; other site 334406003782 Mg2+ binding site [ion binding]; other site 334406003783 G-X-G motif; other site 334406003784 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 334406003785 Ligand Binding Site [chemical binding]; other site 334406003786 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 334406003787 active site 334406003788 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 334406003789 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 334406003790 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 334406003791 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; pfam09953 334406003792 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406003793 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 334406003794 Coenzyme A binding pocket [chemical binding]; other site 334406003795 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 334406003796 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 334406003797 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 334406003798 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 334406003799 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 334406003800 dimer interface [polypeptide binding]; other site 334406003801 putative radical transfer pathway; other site 334406003802 diiron center [ion binding]; other site 334406003803 tyrosyl radical; other site 334406003804 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 334406003805 Predicted transcriptional regulators [Transcription]; Region: COG1725 334406003806 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406003807 DNA-binding site [nucleotide binding]; DNA binding site 334406003808 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334406003809 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334406003810 Walker A/P-loop; other site 334406003811 ATP binding site [chemical binding]; other site 334406003812 Q-loop/lid; other site 334406003813 ABC transporter signature motif; other site 334406003814 Walker B; other site 334406003815 D-loop; other site 334406003816 H-loop/switch region; other site 334406003817 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334406003818 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406003819 Walker A/P-loop; other site 334406003820 ATP binding site [chemical binding]; other site 334406003821 Q-loop/lid; other site 334406003822 ABC transporter signature motif; other site 334406003823 Walker B; other site 334406003824 D-loop; other site 334406003825 H-loop/switch region; other site 334406003826 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 334406003827 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 334406003828 CAAX protease self-immunity; Region: Abi; pfam02517 334406003829 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 334406003830 Protein of unknown function (DUF3913); Region: DUF3913; pfam13052 334406003831 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 334406003832 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406003833 putative DNA binding site [nucleotide binding]; other site 334406003834 putative Zn2+ binding site [ion binding]; other site 334406003835 AsnC family; Region: AsnC_trans_reg; pfam01037 334406003836 Uncharacterized conserved protein [Function unknown]; Region: COG2128 334406003837 Isochorismatase family; Region: Isochorismatase; pfam00857 334406003838 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 334406003839 catalytic triad [active] 334406003840 conserved cis-peptide bond; other site 334406003841 SseB protein; Region: SseB; cl06279 334406003842 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 334406003843 dimer interface [polypeptide binding]; other site 334406003844 catalytic triad [active] 334406003845 Nitronate monooxygenase; Region: NMO; pfam03060 334406003846 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 334406003847 FMN binding site [chemical binding]; other site 334406003848 substrate binding site [chemical binding]; other site 334406003849 putative catalytic residue [active] 334406003850 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 334406003851 DltD N-terminal region; Region: DltD_N; pfam04915 334406003852 DltD central region; Region: DltD_M; pfam04918 334406003853 DltD C-terminal region; Region: DltD_C; pfam04914 334406003854 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 334406003855 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 334406003856 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 334406003857 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 334406003858 acyl-activating enzyme (AAE) consensus motif; other site 334406003859 AMP binding site [chemical binding]; other site 334406003860 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 334406003861 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 334406003862 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 334406003863 metal binding site [ion binding]; metal-binding site 334406003864 dimer interface [polypeptide binding]; other site 334406003865 flavodoxin; Provisional; Region: PRK06756 334406003866 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 334406003867 Phosphotransferase enzyme family; Region: APH; pfam01636 334406003868 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 334406003869 active site 334406003870 substrate binding site [chemical binding]; other site 334406003871 ATP binding site [chemical binding]; other site 334406003872 multidrug efflux protein; Reviewed; Region: PRK01766 334406003873 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 334406003874 cation binding site [ion binding]; other site 334406003875 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 334406003876 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 334406003877 catalytic residues [active] 334406003878 Regulatory protein YrvL; Region: YrvL; pfam14184 334406003879 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406003880 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 334406003881 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 334406003882 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 334406003883 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 334406003884 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 334406003885 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 334406003886 hypothetical protein; Provisional; Region: PRK03094 334406003887 Protein of unknown function (DUF3911); Region: DUF3911; pfam13050 334406003888 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 334406003889 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 334406003890 homodimer interface [polypeptide binding]; other site 334406003891 substrate-cofactor binding pocket; other site 334406003892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406003893 catalytic residue [active] 334406003894 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 334406003895 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 334406003896 PYR/PP interface [polypeptide binding]; other site 334406003897 dimer interface [polypeptide binding]; other site 334406003898 TPP binding site [chemical binding]; other site 334406003899 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 334406003900 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 334406003901 TPP-binding site [chemical binding]; other site 334406003902 dimer interface [polypeptide binding]; other site 334406003903 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 334406003904 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 334406003905 putative valine binding site [chemical binding]; other site 334406003906 dimer interface [polypeptide binding]; other site 334406003907 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 334406003908 ketol-acid reductoisomerase; Provisional; Region: PRK05479 334406003909 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 334406003910 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 334406003911 2-isopropylmalate synthase; Validated; Region: PRK00915 334406003912 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 334406003913 active site 334406003914 catalytic residues [active] 334406003915 metal binding site [ion binding]; metal-binding site 334406003916 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 334406003917 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 334406003918 tartrate dehydrogenase; Region: TTC; TIGR02089 334406003919 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 334406003920 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 334406003921 substrate binding site [chemical binding]; other site 334406003922 ligand binding site [chemical binding]; other site 334406003923 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 334406003924 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 334406003925 substrate binding site [chemical binding]; other site 334406003926 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 334406003927 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 334406003928 dimer interface [polypeptide binding]; other site 334406003929 motif 1; other site 334406003930 active site 334406003931 motif 2; other site 334406003932 motif 3; other site 334406003933 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 334406003934 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 334406003935 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 334406003936 histidinol dehydrogenase; Region: hisD; TIGR00069 334406003937 NAD binding site [chemical binding]; other site 334406003938 dimerization interface [polypeptide binding]; other site 334406003939 product binding site; other site 334406003940 substrate binding site [chemical binding]; other site 334406003941 zinc binding site [ion binding]; other site 334406003942 catalytic residues [active] 334406003943 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 334406003944 putative active site pocket [active] 334406003945 4-fold oligomerization interface [polypeptide binding]; other site 334406003946 metal binding residues [ion binding]; metal-binding site 334406003947 3-fold/trimer interface [polypeptide binding]; other site 334406003948 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 334406003949 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 334406003950 putative active site [active] 334406003951 oxyanion strand; other site 334406003952 catalytic triad [active] 334406003953 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 334406003954 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 334406003955 catalytic residues [active] 334406003956 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 334406003957 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 334406003958 substrate binding site [chemical binding]; other site 334406003959 glutamase interaction surface [polypeptide binding]; other site 334406003960 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 334406003961 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 334406003962 metal binding site [ion binding]; metal-binding site 334406003963 histidinol-phosphatase; Validated; Region: PRK06740 334406003964 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 334406003965 dimer interface [polypeptide binding]; other site 334406003966 active site 334406003967 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 334406003968 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 334406003969 putative ligand binding site [chemical binding]; other site 334406003970 putative NAD binding site [chemical binding]; other site 334406003971 catalytic site [active] 334406003972 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 334406003973 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 334406003974 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 334406003975 Sulfatase; Region: Sulfatase; pfam00884 334406003976 Protein of unknown function (DUF3888); Region: DUF3888; pfam13027 334406003977 diaminopimelate decarboxylase; Region: lysA; TIGR01048 334406003978 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 334406003979 active site 334406003980 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 334406003981 substrate binding site [chemical binding]; other site 334406003982 catalytic residues [active] 334406003983 dimer interface [polypeptide binding]; other site 334406003984 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 334406003985 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 334406003986 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 334406003987 Active Sites [active] 334406003988 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 334406003989 ATP-sulfurylase; Region: ATPS; cd00517 334406003990 active site 334406003991 HXXH motif; other site 334406003992 flexible loop; other site 334406003993 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 334406003994 AAA domain; Region: AAA_18; pfam13238 334406003995 ligand-binding site [chemical binding]; other site 334406003996 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09566 334406003997 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 334406003998 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 334406003999 Protein of unknown function (DUF3906); Region: DUF3906; pfam13046 334406004000 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 334406004001 diphthine synthase; Region: dph5; TIGR00522 334406004002 active site 334406004003 SAM binding site [chemical binding]; other site 334406004004 homodimer interface [polypeptide binding]; other site 334406004005 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 334406004006 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 334406004007 putative active site [active] 334406004008 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 334406004009 putative active site [active] 334406004010 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 334406004011 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 334406004012 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 334406004013 Na2 binding site [ion binding]; other site 334406004014 putative substrate binding site 1 [chemical binding]; other site 334406004015 Na binding site 1 [ion binding]; other site 334406004016 putative substrate binding site 2 [chemical binding]; other site 334406004017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 334406004018 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 334406004019 Peptidase family M23; Region: Peptidase_M23; pfam01551 334406004020 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 334406004021 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 334406004022 Protein of unknown function (DUF402); Region: DUF402; cl00979 334406004023 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 334406004024 Vpu protein; Region: Vpu; pfam00558 334406004025 PspA/IM30 family; Region: PspA_IM30; pfam04012 334406004026 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 334406004027 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 334406004028 Histidine kinase; Region: HisKA_3; pfam07730 334406004029 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406004030 ATP binding site [chemical binding]; other site 334406004031 Mg2+ binding site [ion binding]; other site 334406004032 G-X-G motif; other site 334406004033 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 334406004034 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406004035 active site 334406004036 phosphorylation site [posttranslational modification] 334406004037 intermolecular recognition site; other site 334406004038 dimerization interface [polypeptide binding]; other site 334406004039 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 334406004040 DNA binding residues [nucleotide binding] 334406004041 dimerization interface [polypeptide binding]; other site 334406004042 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 334406004043 E3 interaction surface; other site 334406004044 lipoyl attachment site [posttranslational modification]; other site 334406004045 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 334406004046 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406004047 S-adenosylmethionine binding site [chemical binding]; other site 334406004048 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 334406004049 Peptidase family M50; Region: Peptidase_M50; pfam02163 334406004050 active site 334406004051 putative substrate binding region [chemical binding]; other site 334406004052 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 334406004053 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 334406004054 heme-binding site [chemical binding]; other site 334406004055 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 334406004056 FAD binding pocket [chemical binding]; other site 334406004057 FAD binding motif [chemical binding]; other site 334406004058 phosphate binding motif [ion binding]; other site 334406004059 beta-alpha-beta structure motif; other site 334406004060 NAD binding pocket [chemical binding]; other site 334406004061 Heme binding pocket [chemical binding]; other site 334406004062 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 334406004063 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 334406004064 ligand binding site [chemical binding]; other site 334406004065 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 334406004066 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 334406004067 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 334406004068 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 334406004069 Transglycosylase; Region: Transgly; pfam00912 334406004070 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 334406004071 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334406004072 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 334406004073 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 334406004074 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406004075 putative active site [active] 334406004076 heme pocket [chemical binding]; other site 334406004077 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406004078 dimer interface [polypeptide binding]; other site 334406004079 phosphorylation site [posttranslational modification] 334406004080 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406004081 ATP binding site [chemical binding]; other site 334406004082 Mg2+ binding site [ion binding]; other site 334406004083 G-X-G motif; other site 334406004084 Protein of unknown function DUF72; Region: DUF72; pfam01904 334406004085 Protein of unknown function (DUF3924); Region: DUF3924; pfam13062 334406004086 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 334406004087 active site 334406004088 DNA binding site [nucleotide binding] 334406004089 Int/Topo IB signature motif; other site 334406004090 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406004091 dimerization interface [polypeptide binding]; other site 334406004092 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406004093 dimer interface [polypeptide binding]; other site 334406004094 phosphorylation site [posttranslational modification] 334406004095 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406004096 ATP binding site [chemical binding]; other site 334406004097 Mg2+ binding site [ion binding]; other site 334406004098 G-X-G motif; other site 334406004099 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 334406004100 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 334406004101 Predicted integral membrane protein [Function unknown]; Region: COG0392 334406004102 Uncharacterized conserved protein [Function unknown]; Region: COG2898 334406004103 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 334406004104 Protein of unknown function (DUF3907); Region: DUF3907; pfam13047 334406004105 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 334406004106 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 334406004107 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 334406004108 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334406004109 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 334406004110 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 334406004111 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 334406004112 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 334406004113 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 334406004114 RNA binding surface [nucleotide binding]; other site 334406004115 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 334406004116 active site 334406004117 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 334406004118 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 334406004119 catalytic residues [active] 334406004120 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 334406004121 ResB-like family; Region: ResB; pfam05140 334406004122 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 334406004123 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 334406004124 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406004125 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406004126 active site 334406004127 phosphorylation site [posttranslational modification] 334406004128 intermolecular recognition site; other site 334406004129 dimerization interface [polypeptide binding]; other site 334406004130 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406004131 DNA binding site [nucleotide binding] 334406004132 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 334406004133 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406004134 dimerization interface [polypeptide binding]; other site 334406004135 PAS domain; Region: PAS; smart00091 334406004136 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406004137 dimer interface [polypeptide binding]; other site 334406004138 phosphorylation site [posttranslational modification] 334406004139 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406004140 ATP binding site [chemical binding]; other site 334406004141 Mg2+ binding site [ion binding]; other site 334406004142 G-X-G motif; other site 334406004143 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 334406004144 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 334406004145 Peptidase family M23; Region: Peptidase_M23; pfam01551 334406004146 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334406004147 Predicted membrane protein [Function unknown]; Region: COG3601 334406004148 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 334406004149 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 334406004150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 334406004151 DEAD-like helicases superfamily; Region: DEXDc; smart00487 334406004152 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 334406004153 ATP binding site [chemical binding]; other site 334406004154 putative Mg++ binding site [ion binding]; other site 334406004155 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406004156 nucleotide binding region [chemical binding]; other site 334406004157 ATP-binding site [chemical binding]; other site 334406004158 CAAX protease self-immunity; Region: Abi; pfam02517 334406004159 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334406004160 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 334406004161 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334406004162 putative active site [active] 334406004163 putative metal binding site [ion binding]; other site 334406004164 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 334406004165 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 334406004166 DNA binding residues [nucleotide binding] 334406004167 B12 binding domain; Region: B12-binding_2; pfam02607 334406004168 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 334406004169 adaptor protein; Provisional; Region: PRK02899 334406004170 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 334406004171 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 334406004172 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 334406004173 NAD(P) binding site [chemical binding]; other site 334406004174 Domain of unknown function (DUF3961); Region: DUF3961; pfam13106 334406004175 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 334406004176 amidase catalytic site [active] 334406004177 Zn binding residues [ion binding]; other site 334406004178 substrate binding site [chemical binding]; other site 334406004179 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 334406004180 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 334406004181 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334406004182 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 334406004183 active site 334406004184 homotetramer interface [polypeptide binding]; other site 334406004185 homodimer interface [polypeptide binding]; other site 334406004186 cytidylate kinase; Provisional; Region: cmk; PRK00023 334406004187 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 334406004188 CMP-binding site; other site 334406004189 The sites determining sugar specificity; other site 334406004190 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 334406004191 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 334406004192 RNA binding site [nucleotide binding]; other site 334406004193 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 334406004194 RNA binding site [nucleotide binding]; other site 334406004195 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 334406004196 RNA binding site [nucleotide binding]; other site 334406004197 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 334406004198 RNA binding site [nucleotide binding]; other site 334406004199 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 334406004200 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 334406004201 homotetramer interface [polypeptide binding]; other site 334406004202 FMN binding site [chemical binding]; other site 334406004203 homodimer contacts [polypeptide binding]; other site 334406004204 putative active site [active] 334406004205 putative substrate binding site [chemical binding]; other site 334406004206 YpzI-like protein; Region: YpzI; pfam14140 334406004207 YIEGIA protein; Region: YIEGIA; pfam14045 334406004208 GTP-binding protein Der; Reviewed; Region: PRK00093 334406004209 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 334406004210 G1 box; other site 334406004211 GTP/Mg2+ binding site [chemical binding]; other site 334406004212 Switch I region; other site 334406004213 G2 box; other site 334406004214 Switch II region; other site 334406004215 G3 box; other site 334406004216 G4 box; other site 334406004217 G5 box; other site 334406004218 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 334406004219 G1 box; other site 334406004220 GTP/Mg2+ binding site [chemical binding]; other site 334406004221 Switch I region; other site 334406004222 G2 box; other site 334406004223 G3 box; other site 334406004224 Switch II region; other site 334406004225 G4 box; other site 334406004226 G5 box; other site 334406004227 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 334406004228 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 334406004229 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 334406004230 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 334406004231 Protein of unknown function (DUF2768); Region: DUF2768; pfam10966 334406004232 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 334406004233 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 334406004234 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 334406004235 IHF dimer interface [polypeptide binding]; other site 334406004236 IHF - DNA interface [nucleotide binding]; other site 334406004237 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 334406004238 homodecamer interface [polypeptide binding]; other site 334406004239 GTP cyclohydrolase I; Provisional; Region: PLN03044 334406004240 active site 334406004241 putative catalytic site residues [active] 334406004242 zinc binding site [ion binding]; other site 334406004243 GTP-CH-I/GFRP interaction surface; other site 334406004244 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 334406004245 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 334406004246 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406004247 S-adenosylmethionine binding site [chemical binding]; other site 334406004248 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 334406004249 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 334406004250 substrate binding pocket [chemical binding]; other site 334406004251 chain length determination region; other site 334406004252 substrate-Mg2+ binding site; other site 334406004253 catalytic residues [active] 334406004254 aspartate-rich region 1; other site 334406004255 active site lid residues [active] 334406004256 aspartate-rich region 2; other site 334406004257 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 334406004258 active site 334406004259 multimer interface [polypeptide binding]; other site 334406004260 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 334406004261 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 334406004262 Tetramer interface [polypeptide binding]; other site 334406004263 active site 334406004264 FMN-binding site [chemical binding]; other site 334406004265 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 334406004266 active site 334406004267 dimer interface [polypeptide binding]; other site 334406004268 metal binding site [ion binding]; metal-binding site 334406004269 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 334406004270 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406004271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406004272 homodimer interface [polypeptide binding]; other site 334406004273 catalytic residue [active] 334406004274 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334406004275 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406004276 binding surface 334406004277 TPR motif; other site 334406004278 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 334406004279 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406004280 binding surface 334406004281 TPR motif; other site 334406004282 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334406004283 TPR repeat; Region: TPR_11; pfam13414 334406004284 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406004285 binding surface 334406004286 TPR motif; other site 334406004287 hypothetical protein; Provisional; Region: PRK03636 334406004288 UPF0302 domain; Region: UPF0302; pfam08864 334406004289 IDEAL domain; Region: IDEAL; pfam08858 334406004290 Protein of unknown function (DUF2487); Region: DUF2487; pfam10673 334406004291 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 334406004292 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 334406004293 iron-sulfur cluster [ion binding]; other site 334406004294 [2Fe-2S] cluster binding site [ion binding]; other site 334406004295 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 334406004296 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 334406004297 interchain domain interface [polypeptide binding]; other site 334406004298 intrachain domain interface; other site 334406004299 heme bH binding site [chemical binding]; other site 334406004300 Qi binding site; other site 334406004301 heme bL binding site [chemical binding]; other site 334406004302 Qo binding site; other site 334406004303 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 334406004304 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 334406004305 interchain domain interface [polypeptide binding]; other site 334406004306 intrachain domain interface; other site 334406004307 Qi binding site; other site 334406004308 Qo binding site; other site 334406004309 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 334406004310 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 334406004311 putative transposase OrfB; Reviewed; Region: PHA02517 334406004312 HTH-like domain; Region: HTH_21; pfam13276 334406004313 Integrase core domain; Region: rve; pfam00665 334406004314 Integrase core domain; Region: rve_2; pfam13333 334406004315 Protein of unknown function (DUF1405); Region: DUF1405; pfam07187 334406004316 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 334406004317 Sporulation protein YpjB (SpoYpjB); Region: Spore_YpjB; cl09800 334406004318 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 334406004319 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 334406004320 active site 334406004321 Fe-S cluster binding site [ion binding]; other site 334406004322 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334406004323 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406004324 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406004325 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 334406004326 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 334406004327 homodimer interface [polypeptide binding]; other site 334406004328 metal binding site [ion binding]; metal-binding site 334406004329 dihydrodipicolinate reductase; Provisional; Region: PRK00048 334406004330 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 334406004331 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 334406004332 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 334406004333 active site 334406004334 dimer interfaces [polypeptide binding]; other site 334406004335 catalytic residues [active] 334406004336 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 334406004337 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 334406004338 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 334406004339 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 334406004340 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 334406004341 active site 334406004342 NTP binding site [chemical binding]; other site 334406004343 metal binding triad [ion binding]; metal-binding site 334406004344 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 334406004345 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 334406004346 Biotin operon repressor [Transcription]; Region: BirA; COG1654 334406004347 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 334406004348 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 334406004349 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 334406004350 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 334406004351 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 334406004352 oligomerization interface [polypeptide binding]; other site 334406004353 active site 334406004354 metal binding site [ion binding]; metal-binding site 334406004355 pantoate--beta-alanine ligase; Region: panC; TIGR00018 334406004356 Pantoate-beta-alanine ligase; Region: PanC; cd00560 334406004357 active site 334406004358 ATP-binding site [chemical binding]; other site 334406004359 pantoate-binding site; other site 334406004360 HXXH motif; other site 334406004361 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 334406004362 tetramerization interface [polypeptide binding]; other site 334406004363 active site 334406004364 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 334406004365 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 334406004366 active site 334406004367 catalytic site [active] 334406004368 substrate binding site [chemical binding]; other site 334406004369 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 334406004370 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 334406004371 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 334406004372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 334406004373 aspartate aminotransferase; Provisional; Region: PRK05764 334406004374 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406004375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406004376 homodimer interface [polypeptide binding]; other site 334406004377 catalytic residue [active] 334406004378 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 334406004379 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 334406004380 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 334406004381 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 334406004382 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 334406004383 minor groove reading motif; other site 334406004384 helix-hairpin-helix signature motif; other site 334406004385 substrate binding pocket [chemical binding]; other site 334406004386 active site 334406004387 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 334406004388 Transglycosylase; Region: Transgly; pfam00912 334406004389 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 334406004390 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 334406004391 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 334406004392 Interdomain contacts; other site 334406004393 Cytokine receptor motif; other site 334406004394 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 334406004395 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 334406004396 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 334406004397 YppF-like protein; Region: YppF; pfam14178 334406004398 YppG-like protein; Region: YppG; pfam14179 334406004399 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 334406004400 hypothetical protein; Provisional; Region: PRK13660 334406004401 cell division protein GpsB; Provisional; Region: PRK14127 334406004402 DivIVA domain; Region: DivI1A_domain; TIGR03544 334406004403 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 334406004404 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 334406004405 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 334406004406 Protein of unknown function (DUF3921); Region: DUF3921; pfam13060 334406004407 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 334406004408 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 334406004409 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 334406004410 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 334406004411 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 334406004412 active site 334406004413 Zn binding site [ion binding]; other site 334406004414 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406004415 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334406004416 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 334406004417 active site 334406004418 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334406004419 active site 334406004420 xanthine permease; Region: pbuX; TIGR03173 334406004421 Predicted membrane protein [Function unknown]; Region: COG2311 334406004422 Protein of unknown function (DUF418); Region: DUF418; cl12135 334406004423 Protein of unknown function (DUF418); Region: DUF418; pfam04235 334406004424 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 334406004425 G3 box; other site 334406004426 Switch II region; other site 334406004427 GTP/Mg2+ binding site [chemical binding]; other site 334406004428 G4 box; other site 334406004429 G5 box; other site 334406004430 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 334406004431 Dynamin family; Region: Dynamin_N; pfam00350 334406004432 G1 box; other site 334406004433 GTP/Mg2+ binding site [chemical binding]; other site 334406004434 G2 box; other site 334406004435 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 334406004436 G3 box; other site 334406004437 Switch II region; other site 334406004438 GTP/Mg2+ binding site [chemical binding]; other site 334406004439 G4 box; other site 334406004440 G5 box; other site 334406004441 Protein of unknown function (DUF3931); Region: DUF3931; pfam13082 334406004442 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406004443 Coenzyme A binding pocket [chemical binding]; other site 334406004444 Protein of unknown function (DUF2533); Region: DUF2533; pfam10752 334406004445 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 334406004446 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 334406004447 active site residue [active] 334406004448 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 334406004449 active site residue [active] 334406004450 Glutathionylspermidine synthase preATP-grasp; Region: GSP_synth; cl00503 334406004451 Predicted membrane protein [Function unknown]; Region: COG3766 334406004452 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 334406004453 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 334406004454 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 334406004455 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334406004456 5'-3' exonuclease; Region: 53EXOc; smart00475 334406004457 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 334406004458 active site 334406004459 metal binding site 1 [ion binding]; metal-binding site 334406004460 putative 5' ssDNA interaction site; other site 334406004461 metal binding site 3; metal-binding site 334406004462 metal binding site 2 [ion binding]; metal-binding site 334406004463 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 334406004464 putative DNA binding site [nucleotide binding]; other site 334406004465 putative metal binding site [ion binding]; other site 334406004466 Protein of unknown function (DUF3901); Region: DUF3901; pfam13040 334406004467 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004468 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004469 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004470 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004471 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004472 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004473 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004474 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004475 Domain of unknown function DUF11; Region: DUF11; cl17728 334406004476 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004477 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004478 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004479 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004480 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004481 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004482 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004483 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004484 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004485 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004486 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004487 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004488 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004489 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004490 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004491 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004492 Domain of unknown function DUF11; Region: DUF11; cl17728 334406004493 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004494 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406004495 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406004496 Coenzyme A binding pocket [chemical binding]; other site 334406004497 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 334406004498 Isochorismatase family; Region: Isochorismatase; pfam00857 334406004499 catalytic triad [active] 334406004500 conserved cis-peptide bond; other site 334406004501 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 334406004502 EamA-like transporter family; Region: EamA; pfam00892 334406004503 EamA-like transporter family; Region: EamA; pfam00892 334406004504 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 334406004505 RNA/DNA hybrid binding site [nucleotide binding]; other site 334406004506 active site 334406004507 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 334406004508 active site 334406004509 catalytic residues [active] 334406004510 QueT transporter; Region: QueT; pfam06177 334406004511 hypothetical protein; Validated; Region: PRK07708 334406004512 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 334406004513 RNA/DNA hybrid binding site [nucleotide binding]; other site 334406004514 active site 334406004515 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 334406004516 Protein of unknown function (DUF2564); Region: DUF2564; pfam10819 334406004517 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 334406004518 DNA-binding site [nucleotide binding]; DNA binding site 334406004519 RNA-binding motif; other site 334406004520 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 334406004521 LysE type translocator; Region: LysE; pfam01810 334406004522 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 334406004523 Protein of unknown function, DUF485; Region: DUF485; pfam04341 334406004524 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 334406004525 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 334406004526 Na binding site [ion binding]; other site 334406004527 aminotransferase; Validated; Region: PRK07678 334406004528 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 334406004529 inhibitor-cofactor binding pocket; inhibition site 334406004530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406004531 catalytic residue [active] 334406004532 Protein of unknown function (DUF3986); Region: DUF3986; pfam13143 334406004533 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 334406004534 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 334406004535 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 334406004536 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406004537 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 334406004538 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 334406004539 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 334406004540 DNA binding residues [nucleotide binding] 334406004541 drug binding residues [chemical binding]; other site 334406004542 dimer interface [polypeptide binding]; other site 334406004543 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 334406004544 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 334406004545 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 334406004546 putative transposase OrfB; Reviewed; Region: PHA02517 334406004547 HTH-like domain; Region: HTH_21; pfam13276 334406004548 Integrase core domain; Region: rve; pfam00665 334406004549 Integrase core domain; Region: rve_2; pfam13333 334406004550 Predicted membrane protein [Function unknown]; Region: COG2323 334406004551 Uncharacterized conserved protein [Function unknown]; Region: COG1434 334406004552 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 334406004553 putative active site [active] 334406004554 Tic20-like protein; Region: Tic20; pfam09685 334406004555 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 334406004556 dimer interface [polypeptide binding]; other site 334406004557 FMN binding site [chemical binding]; other site 334406004558 NADPH bind site [chemical binding]; other site 334406004559 DJ-1 family protein; Region: not_thiJ; TIGR01383 334406004560 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 334406004561 conserved cys residue [active] 334406004562 RNA polymerase factor sigma-70; Validated; Region: PRK06811 334406004563 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406004564 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406004565 DNA binding residues [nucleotide binding] 334406004566 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 334406004567 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406004568 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406004569 putative substrate translocation pore; other site 334406004570 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406004571 dimerization interface [polypeptide binding]; other site 334406004572 putative DNA binding site [nucleotide binding]; other site 334406004573 putative Zn2+ binding site [ion binding]; other site 334406004574 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406004575 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406004576 putative substrate translocation pore; other site 334406004577 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 334406004578 active site 334406004579 metal binding site [ion binding]; metal-binding site 334406004580 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406004581 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 334406004582 bacterial Hfq-like; Region: Hfq; cd01716 334406004583 hexamer interface [polypeptide binding]; other site 334406004584 Sm1 motif; other site 334406004585 RNA binding site [nucleotide binding]; other site 334406004586 Sm2 motif; other site 334406004587 HD domain; Region: HD_3; pfam13023 334406004588 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 334406004589 flagellar motor protein MotP; Reviewed; Region: PRK06743 334406004590 flagellar motor protein MotS; Reviewed; Region: PRK06742 334406004591 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 334406004592 ligand binding site [chemical binding]; other site 334406004593 Response regulator receiver domain; Region: Response_reg; pfam00072 334406004594 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406004595 active site 334406004596 phosphorylation site [posttranslational modification] 334406004597 intermolecular recognition site; other site 334406004598 dimerization interface [polypeptide binding]; other site 334406004599 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 334406004600 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 334406004601 putative binding surface; other site 334406004602 active site 334406004603 P2 response regulator binding domain; Region: P2; pfam07194 334406004604 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 334406004605 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406004606 ATP binding site [chemical binding]; other site 334406004607 Mg2+ binding site [ion binding]; other site 334406004608 G-X-G motif; other site 334406004609 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 334406004610 flagellar motor switch protein; Reviewed; Region: PRK06782 334406004611 CheC-like family; Region: CheC; pfam04509 334406004612 CheC-like family; Region: CheC; pfam04509 334406004613 CheC-like family; Region: CheC; pfam04509 334406004614 CheC-like family; Region: CheC; pfam04509 334406004615 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 334406004616 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 334406004617 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 334406004618 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 334406004619 Protein of unknown function (DUF327); Region: DUF327; pfam03885 334406004620 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06799 334406004621 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 334406004622 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08073 334406004623 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 334406004624 flagellar capping protein; Validated; Region: fliD; PRK06798 334406004625 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 334406004626 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 334406004627 Flagellar protein FliS; Region: FliS; cl00654 334406004628 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06797 334406004629 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 334406004630 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 334406004631 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 334406004632 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK01699 334406004633 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 334406004634 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 334406004635 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 334406004636 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 334406004637 FliG C-terminal domain; Region: FliG_C; pfam01706 334406004638 flagellar assembly protein H; Validated; Region: fliH; PRK06800 334406004639 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06793 334406004640 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 334406004641 Walker A motif; other site 334406004642 ATP binding site [chemical binding]; other site 334406004643 Walker B motif; other site 334406004644 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 334406004645 flagellar basal body rod modification protein; Validated; Region: flgD; PRK06792 334406004646 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 334406004647 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 334406004648 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 334406004649 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 334406004650 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 334406004651 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 334406004652 Protein of unknown function (DUF3964); Region: DUF3964; pfam13107 334406004653 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 334406004654 Response regulator receiver domain; Region: Response_reg; pfam00072 334406004655 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406004656 active site 334406004657 phosphorylation site [posttranslational modification] 334406004658 intermolecular recognition site; other site 334406004659 dimerization interface [polypeptide binding]; other site 334406004660 DNA binding domain of the motility gene repressor (MogR); Region: MogR_DNAbind; pfam12181 334406004661 flagellin; Provisional; Region: PRK12807 334406004662 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 334406004663 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 334406004664 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 334406004665 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 334406004666 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 334406004667 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 334406004668 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 334406004669 N-acetyl-D-glucosamine binding site [chemical binding]; other site 334406004670 catalytic residue [active] 334406004671 flagellar motor switch protein; Validated; Region: PRK06789 334406004672 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 334406004673 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 334406004674 flagellar motor switch protein; Validated; Region: PRK06788 334406004675 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 334406004676 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 334406004677 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 334406004678 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 334406004679 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 334406004680 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 334406004681 FHIPEP family; Region: FHIPEP; pfam00771 334406004682 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK11889 334406004683 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 334406004684 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12819 334406004685 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 334406004686 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 334406004687 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 334406004688 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 334406004689 Predicted transcriptional regulators [Transcription]; Region: COG1378 334406004690 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 334406004691 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 334406004692 C-terminal domain interface [polypeptide binding]; other site 334406004693 sugar binding site [chemical binding]; other site 334406004694 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 334406004695 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 334406004696 Protein of unknown function (DUF3951); Region: DUF3951; pfam13131 334406004697 Dienelactone hydrolase family; Region: DLH; pfam01738 334406004698 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 334406004699 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 334406004700 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 334406004701 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 334406004702 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 334406004703 Cna protein B-type domain; Region: Cna_B; pfam05738 334406004704 Cna protein B-type domain; Region: Cna_B; pfam05738 334406004705 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 334406004706 Cna protein B-type domain; Region: Cna_B; pfam05738 334406004707 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 334406004708 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 334406004709 active site 334406004710 catalytic site [active] 334406004711 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 334406004712 active site 334406004713 catalytic site [active] 334406004714 small acid-soluble spore protein, H-type; Region: SASP_H; TIGR02861 334406004715 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406004716 non-specific DNA binding site [nucleotide binding]; other site 334406004717 salt bridge; other site 334406004718 sequence-specific DNA binding site [nucleotide binding]; other site 334406004719 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406004720 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406004721 putative substrate translocation pore; other site 334406004722 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 334406004723 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334406004724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334406004725 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 334406004726 dimerization interface [polypeptide binding]; other site 334406004727 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 334406004728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406004729 Walker A/P-loop; other site 334406004730 ATP binding site [chemical binding]; other site 334406004731 Q-loop/lid; other site 334406004732 ABC transporter signature motif; other site 334406004733 Walker B; other site 334406004734 D-loop; other site 334406004735 H-loop/switch region; other site 334406004736 TOBE domain; Region: TOBE_2; pfam08402 334406004737 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 334406004738 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 334406004739 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 334406004740 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406004741 dimer interface [polypeptide binding]; other site 334406004742 conserved gate region; other site 334406004743 putative PBP binding loops; other site 334406004744 ABC-ATPase subunit interface; other site 334406004745 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406004746 dimer interface [polypeptide binding]; other site 334406004747 conserved gate region; other site 334406004748 putative PBP binding loops; other site 334406004749 ABC-ATPase subunit interface; other site 334406004750 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 334406004751 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 334406004752 Beta-Casp domain; Region: Beta-Casp; smart01027 334406004753 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 334406004754 Uncharacterized protein from bacillus cereus group; Region: YfmQ; pfam10787 334406004755 short chain dehydrogenase; Provisional; Region: PRK08226 334406004756 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334406004757 NAD(P) binding site [chemical binding]; other site 334406004758 active site 334406004759 Cupin; Region: Cupin_1; smart00835 334406004760 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 334406004761 Domain of unknown function (DUF3885); Region: DUF3885; pfam13021 334406004762 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 334406004763 catalytic core [active] 334406004764 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 334406004765 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 334406004766 hypothetical protein; Provisional; Region: PRK09272 334406004767 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406004768 MarR family; Region: MarR_2; pfam12802 334406004769 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 334406004770 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 334406004771 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 334406004772 active site 334406004773 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 334406004774 Ligand Binding Site [chemical binding]; other site 334406004775 Molecular Tunnel; other site 334406004776 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 334406004777 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 334406004778 putative active site [active] 334406004779 putative NTP binding site [chemical binding]; other site 334406004780 putative nucleic acid binding site [nucleotide binding]; other site 334406004781 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 334406004782 active site 334406004783 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 334406004784 RNA polymerase factor sigma-70; Validated; Region: PRK06811 334406004785 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406004786 DNA binding residues [nucleotide binding] 334406004787 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 334406004788 VPS10 domain; Region: VPS10; smart00602 334406004789 VPS10 domain; Region: VPS10; smart00602 334406004790 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 334406004791 Protein of unknown function (DUF3940); Region: DUF3940; pfam13076 334406004792 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406004793 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 334406004794 DNA-binding site [nucleotide binding]; DNA binding site 334406004795 FCD domain; Region: FCD; pfam07729 334406004796 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 334406004797 EamA-like transporter family; Region: EamA; pfam00892 334406004798 EamA-like transporter family; Region: EamA; pfam00892 334406004799 Methyltransferase domain; Region: Methyltransf_24; pfam13578 334406004800 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 334406004801 fumarate hydratase; Reviewed; Region: fumC; PRK00485 334406004802 Class II fumarases; Region: Fumarase_classII; cd01362 334406004803 active site 334406004804 tetramer interface [polypeptide binding]; other site 334406004805 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 334406004806 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 334406004807 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 334406004808 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 334406004809 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 334406004810 active site pocket [active] 334406004811 oxyanion hole [active] 334406004812 catalytic triad [active] 334406004813 active site nucleophile [active] 334406004814 Protein of unknown function (DUF3942); Region: DUF3942; pfam13078 334406004815 Penicillinase repressor; Region: Pencillinase_R; pfam03965 334406004816 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 334406004817 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 334406004818 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 334406004819 catalytic residues [active] 334406004820 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 334406004821 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 334406004822 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406004823 non-specific DNA binding site [nucleotide binding]; other site 334406004824 salt bridge; other site 334406004825 sequence-specific DNA binding site [nucleotide binding]; other site 334406004826 Cupin domain; Region: Cupin_2; pfam07883 334406004827 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 334406004828 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 334406004829 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334406004830 catalytic residue [active] 334406004831 Protein of unknown function (DUF445); Region: DUF445; pfam04286 334406004832 RNA polymerase sigma factor SigW; Reviewed; Region: PRK09642 334406004833 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406004834 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406004835 DNA binding residues [nucleotide binding] 334406004836 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 334406004837 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406004838 active site 334406004839 phosphorylation site [posttranslational modification] 334406004840 intermolecular recognition site; other site 334406004841 dimerization interface [polypeptide binding]; other site 334406004842 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 334406004843 DNA binding residues [nucleotide binding] 334406004844 dimerization interface [polypeptide binding]; other site 334406004845 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 334406004846 Histidine kinase; Region: HisKA_3; pfam07730 334406004847 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334406004848 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406004849 Walker A/P-loop; other site 334406004850 ATP binding site [chemical binding]; other site 334406004851 Q-loop/lid; other site 334406004852 ABC transporter signature motif; other site 334406004853 Walker B; other site 334406004854 D-loop; other site 334406004855 H-loop/switch region; other site 334406004856 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 334406004857 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 334406004858 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 334406004859 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 334406004860 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 334406004861 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 334406004862 putative active site [active] 334406004863 catalytic site [active] 334406004864 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 334406004865 PLD-like domain; Region: PLDc_2; pfam13091 334406004866 putative active site [active] 334406004867 catalytic site [active] 334406004868 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 334406004869 putative nucleotide binding site [chemical binding]; other site 334406004870 uridine monophosphate binding site [chemical binding]; other site 334406004871 homohexameric interface [polypeptide binding]; other site 334406004872 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 334406004873 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 334406004874 aspartate ammonia-lyase; Provisional; Region: PRK14515 334406004875 Aspartase; Region: Aspartase; cd01357 334406004876 active sites [active] 334406004877 tetramer interface [polypeptide binding]; other site 334406004878 malate dehydrogenase; Provisional; Region: PRK13529 334406004879 Malic enzyme, N-terminal domain; Region: malic; pfam00390 334406004880 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 334406004881 NAD(P) binding site [chemical binding]; other site 334406004882 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406004883 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406004884 ATP binding site [chemical binding]; other site 334406004885 Mg2+ binding site [ion binding]; other site 334406004886 G-X-G motif; other site 334406004887 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406004888 Response regulator receiver domain; Region: Response_reg; pfam00072 334406004889 active site 334406004890 phosphorylation site [posttranslational modification] 334406004891 intermolecular recognition site; other site 334406004892 dimerization interface [polypeptide binding]; other site 334406004893 YcbB domain; Region: YcbB; pfam08664 334406004894 SWIM zinc finger; Region: SWIM; pfam04434 334406004895 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 334406004896 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 334406004897 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 334406004898 ATP binding site [chemical binding]; other site 334406004899 putative Mg++ binding site [ion binding]; other site 334406004900 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406004901 nucleotide binding region [chemical binding]; other site 334406004902 ATP-binding site [chemical binding]; other site 334406004903 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 334406004904 dimer interface [polypeptide binding]; other site 334406004905 active site 334406004906 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_7; cd08353 334406004907 putative dimer interface [polypeptide binding]; other site 334406004908 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406004909 aspartate kinase; Reviewed; Region: PRK06635 334406004910 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 334406004911 putative nucleotide binding site [chemical binding]; other site 334406004912 putative catalytic residues [active] 334406004913 putative Mg ion binding site [ion binding]; other site 334406004914 putative aspartate binding site [chemical binding]; other site 334406004915 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 334406004916 putative allosteric regulatory site; other site 334406004917 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 334406004918 putative allosteric regulatory residue; other site 334406004919 DoxX-like family; Region: DoxX_3; pfam13781 334406004920 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 334406004921 YndJ-like protein; Region: YndJ; pfam14158 334406004922 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 334406004923 putative active site [active] 334406004924 nucleotide binding site [chemical binding]; other site 334406004925 nudix motif; other site 334406004926 putative metal binding site [ion binding]; other site 334406004927 S-layer homology domain; Region: SLH; pfam00395 334406004928 S-layer homology domain; Region: SLH; pfam00395 334406004929 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 334406004930 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 334406004931 active site 334406004932 metal binding site [ion binding]; metal-binding site 334406004933 S-layer homology domain; Region: SLH; pfam00395 334406004934 S-layer homology domain; Region: SLH; pfam00395 334406004935 S-layer homology domain; Region: SLH; pfam00395 334406004936 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 334406004937 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406004938 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406004939 putative substrate translocation pore; other site 334406004940 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 334406004941 Carbon starvation protein CstA; Region: CstA; pfam02554 334406004942 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 334406004943 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 334406004944 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406004945 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 334406004946 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406004947 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406004948 putative substrate translocation pore; other site 334406004949 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406004950 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406004951 putative substrate translocation pore; other site 334406004952 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 334406004953 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 334406004954 dimer interface [polypeptide binding]; other site 334406004955 active site 334406004956 CoA binding pocket [chemical binding]; other site 334406004957 NTR_like domain; a beta barrel with an oligosaccharide/oligonucleotide-binding fold found in netrins, complement proteins, tissue inhibitors of metalloproteases (TIMP), and procollagen C-proteinase enhancers (PCOLCE), amongst others. In netrins, the...; Region: NTR_like; cl02512 334406004958 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 334406004959 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 334406004960 HflX GTPase family; Region: HflX; cd01878 334406004961 G1 box; other site 334406004962 GTP/Mg2+ binding site [chemical binding]; other site 334406004963 Switch I region; other site 334406004964 G2 box; other site 334406004965 G3 box; other site 334406004966 Switch II region; other site 334406004967 G4 box; other site 334406004968 G5 box; other site 334406004969 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 334406004970 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 334406004971 peptide binding site [polypeptide binding]; other site 334406004972 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406004973 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406004974 putative substrate translocation pore; other site 334406004975 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 334406004976 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 334406004977 dimer interface [polypeptide binding]; other site 334406004978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406004979 catalytic residue [active] 334406004980 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406004981 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406004982 Coenzyme A binding pocket [chemical binding]; other site 334406004983 Domain of unknown function (DUF4037); Region: DUF4037; pfam13228 334406004984 stage V sporulation protein B; Region: spore_V_B; TIGR02900 334406004985 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 334406004986 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 334406004987 Na2 binding site [ion binding]; other site 334406004988 putative substrate binding site 1 [chemical binding]; other site 334406004989 Na binding site 1 [ion binding]; other site 334406004990 putative substrate binding site 2 [chemical binding]; other site 334406004991 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 334406004992 Putative catalytic NodB homology domain of uncharacterized BH1302 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH1302_like; cd10956 334406004993 NodB motif; other site 334406004994 putative active site [active] 334406004995 putative catalytic site [active] 334406004996 putative Zn binding site [ion binding]; other site 334406004997 Mor transcription activator family; Region: Mor; cl02360 334406004998 Predicted membrane protein [Function unknown]; Region: COG2323 334406004999 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 334406005000 methionine sulfoxide reductase A; Provisional; Region: PRK14054 334406005001 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 334406005002 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 334406005003 homodimer interface [polypeptide binding]; other site 334406005004 substrate-cofactor binding pocket; other site 334406005005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406005006 catalytic residue [active] 334406005007 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06725 334406005008 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 334406005009 PYR/PP interface [polypeptide binding]; other site 334406005010 dimer interface [polypeptide binding]; other site 334406005011 TPP binding site [chemical binding]; other site 334406005012 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 334406005013 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 334406005014 TPP-binding site [chemical binding]; other site 334406005015 dimer interface [polypeptide binding]; other site 334406005016 ketol-acid reductoisomerase; Provisional; Region: PRK05479 334406005017 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 334406005018 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 334406005019 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 334406005020 threonine dehydratase; Validated; Region: PRK08639 334406005021 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 334406005022 tetramer interface [polypeptide binding]; other site 334406005023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406005024 catalytic residue [active] 334406005025 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 334406005026 putative Ile/Val binding site [chemical binding]; other site 334406005027 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 334406005028 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 334406005029 putative active site [active] 334406005030 putative metal binding site [ion binding]; other site 334406005031 Protein of unknown function (DUF554); Region: DUF554; pfam04474 334406005032 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005033 Coenzyme A binding pocket [chemical binding]; other site 334406005034 drug efflux system protein MdtG; Provisional; Region: PRK09874 334406005035 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406005036 putative substrate translocation pore; other site 334406005037 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 334406005038 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 334406005039 putative active site [active] 334406005040 metal binding site [ion binding]; metal-binding site 334406005041 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 334406005042 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 334406005043 LytTr DNA-binding domain; Region: LytTR; pfam04397 334406005044 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 334406005045 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 334406005046 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 334406005047 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 334406005048 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 334406005049 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005050 Coenzyme A binding pocket [chemical binding]; other site 334406005051 5-methylthioadenosine/S-adenosylhomocysteine deaminase; Provisional; Region: PRK15493 334406005052 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 334406005053 active site 334406005054 putative substrate binding pocket [chemical binding]; other site 334406005055 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334406005056 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406005057 ABC transporter signature motif; other site 334406005058 Walker B; other site 334406005059 D-loop; other site 334406005060 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 334406005061 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 334406005062 peptide binding site [polypeptide binding]; other site 334406005063 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406005064 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005065 Coenzyme A binding pocket [chemical binding]; other site 334406005066 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406005067 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406005068 active site 334406005069 phosphorylation site [posttranslational modification] 334406005070 intermolecular recognition site; other site 334406005071 dimerization interface [polypeptide binding]; other site 334406005072 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406005073 DNA binding site [nucleotide binding] 334406005074 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406005075 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406005076 dimerization interface [polypeptide binding]; other site 334406005077 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406005078 dimer interface [polypeptide binding]; other site 334406005079 phosphorylation site [posttranslational modification] 334406005080 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406005081 ATP binding site [chemical binding]; other site 334406005082 Mg2+ binding site [ion binding]; other site 334406005083 G-X-G motif; other site 334406005084 Peptidase family M23; Region: Peptidase_M23; pfam01551 334406005085 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 334406005086 manganese transport protein MntH; Reviewed; Region: PRK00701 334406005087 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 334406005088 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 334406005089 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 334406005090 active site residue [active] 334406005091 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 334406005092 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 334406005093 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 334406005094 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 334406005095 Amino acid permease; Region: AA_permease_2; pfam13520 334406005096 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 334406005097 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 334406005098 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 334406005099 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 334406005100 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406005101 DNA binding residues [nucleotide binding] 334406005102 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 334406005103 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 334406005104 intersubunit interface [polypeptide binding]; other site 334406005105 active site 334406005106 catalytic residue [active] 334406005107 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 334406005108 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 334406005109 Nucleoside recognition; Region: Gate; pfam07670 334406005110 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 334406005111 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 334406005112 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 334406005113 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 334406005114 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 334406005115 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 334406005116 active site 334406005117 catalytic motif [active] 334406005118 Zn binding site [ion binding]; other site 334406005119 Protein of unknown function (DUF1453); Region: DUF1453; pfam07301 334406005120 hypothetical protein; Provisional; Region: PRK01631 334406005121 proline aminopeptidase P II; Provisional; Region: PRK10879 334406005122 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 334406005123 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 334406005124 active site 334406005125 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 334406005126 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 334406005127 DNA topoisomerase III; Provisional; Region: PRK07726 334406005128 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 334406005129 active site 334406005130 putative interdomain interaction site [polypeptide binding]; other site 334406005131 putative metal-binding site [ion binding]; other site 334406005132 putative nucleotide binding site [chemical binding]; other site 334406005133 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 334406005134 domain I; other site 334406005135 DNA binding groove [nucleotide binding] 334406005136 phosphate binding site [ion binding]; other site 334406005137 domain II; other site 334406005138 domain III; other site 334406005139 nucleotide binding site [chemical binding]; other site 334406005140 catalytic site [active] 334406005141 domain IV; other site 334406005142 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 334406005143 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 334406005144 DNA binding domains of BfiI, EcoRII and plant B3 proteins; Region: BfiI_C_EcoRII_N_B3; cl15242 334406005145 DNA binding site [nucleotide binding] 334406005146 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 334406005147 Sodium Bile acid symporter family; Region: SBF; cl17470 334406005148 azoreductase; Provisional; Region: PRK13555 334406005149 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 334406005150 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406005151 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 334406005152 dimer interface [polypeptide binding]; other site 334406005153 substrate binding site [chemical binding]; other site 334406005154 metal binding site [ion binding]; metal-binding site 334406005155 CopC domain; Region: CopC; pfam04234 334406005156 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 334406005157 YtkA-like; Region: YtkA; pfam13115 334406005158 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 334406005159 EamA-like transporter family; Region: EamA; pfam00892 334406005160 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 334406005161 EamA-like transporter family; Region: EamA; pfam00892 334406005162 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334406005163 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334406005164 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 334406005165 dimerization interface [polypeptide binding]; other site 334406005166 Predicted transcriptional regulator [Transcription]; Region: COG1959 334406005167 Transcriptional regulator; Region: Rrf2; pfam02082 334406005168 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 334406005169 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 334406005170 catalytic residues [active] 334406005171 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 334406005172 dimer interface [polypeptide binding]; other site 334406005173 FMN binding site [chemical binding]; other site 334406005174 amidase; Provisional; Region: PRK06707 334406005175 Amidase; Region: Amidase; cl11426 334406005176 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 334406005177 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 334406005178 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 334406005179 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334406005180 NAD binding site [chemical binding]; other site 334406005181 dimer interface [polypeptide binding]; other site 334406005182 substrate binding site [chemical binding]; other site 334406005183 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 334406005184 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 334406005185 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 334406005186 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 334406005187 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 334406005188 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 334406005189 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 334406005190 putative ligand binding site [chemical binding]; other site 334406005191 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 334406005192 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 334406005193 Walker A/P-loop; other site 334406005194 ATP binding site [chemical binding]; other site 334406005195 Q-loop/lid; other site 334406005196 ABC transporter signature motif; other site 334406005197 Walker B; other site 334406005198 D-loop; other site 334406005199 H-loop/switch region; other site 334406005200 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 334406005201 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 334406005202 Walker A/P-loop; other site 334406005203 ATP binding site [chemical binding]; other site 334406005204 Q-loop/lid; other site 334406005205 ABC transporter signature motif; other site 334406005206 Walker B; other site 334406005207 D-loop; other site 334406005208 H-loop/switch region; other site 334406005209 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 334406005210 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 334406005211 TM-ABC transporter signature motif; other site 334406005212 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 334406005213 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 334406005214 TM-ABC transporter signature motif; other site 334406005215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334406005216 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334406005217 LysR substrate binding domain; Region: LysR_substrate; pfam03466 334406005218 dimerization interface [polypeptide binding]; other site 334406005219 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 334406005220 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406005221 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406005222 putative Zn2+ binding site [ion binding]; other site 334406005223 putative DNA binding site [nucleotide binding]; other site 334406005224 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 334406005225 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 334406005226 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 334406005227 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 334406005228 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 334406005229 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 334406005230 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 334406005231 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 334406005232 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334406005233 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406005234 Walker A/P-loop; other site 334406005235 ATP binding site [chemical binding]; other site 334406005236 Q-loop/lid; other site 334406005237 ABC transporter signature motif; other site 334406005238 Walker B; other site 334406005239 D-loop; other site 334406005240 H-loop/switch region; other site 334406005241 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 334406005242 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334406005243 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 334406005244 Walker A/P-loop; other site 334406005245 ATP binding site [chemical binding]; other site 334406005246 Q-loop/lid; other site 334406005247 ABC transporter signature motif; other site 334406005248 Walker B; other site 334406005249 D-loop; other site 334406005250 H-loop/switch region; other site 334406005251 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 334406005252 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 334406005253 active site 334406005254 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 334406005255 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 334406005256 active site 334406005257 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406005258 Methyltransferase domain; Region: Methyltransf_23; pfam13489 334406005259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 334406005260 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 334406005261 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 334406005262 inhibitor-cofactor binding pocket; inhibition site 334406005263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406005264 catalytic residue [active] 334406005265 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 334406005266 trimer interface [polypeptide binding]; other site 334406005267 active site 334406005268 substrate binding site [chemical binding]; other site 334406005269 CoA binding site [chemical binding]; other site 334406005270 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 334406005271 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cl00700 334406005272 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334406005273 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 334406005274 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 334406005275 dimer interface [polypeptide binding]; other site 334406005276 FMN binding site [chemical binding]; other site 334406005277 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406005278 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406005279 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406005280 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 334406005281 NlpC/P60 family; Region: NLPC_P60; pfam00877 334406005282 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334406005283 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334406005284 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334406005285 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406005286 Walker A/P-loop; other site 334406005287 ATP binding site [chemical binding]; other site 334406005288 Q-loop/lid; other site 334406005289 ABC transporter signature motif; other site 334406005290 Walker B; other site 334406005291 D-loop; other site 334406005292 H-loop/switch region; other site 334406005293 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406005294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406005295 active site 334406005296 phosphorylation site [posttranslational modification] 334406005297 intermolecular recognition site; other site 334406005298 dimerization interface [polypeptide binding]; other site 334406005299 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406005300 DNA binding site [nucleotide binding] 334406005301 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406005302 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406005303 dimerization interface [polypeptide binding]; other site 334406005304 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406005305 dimer interface [polypeptide binding]; other site 334406005306 phosphorylation site [posttranslational modification] 334406005307 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406005308 ATP binding site [chemical binding]; other site 334406005309 Mg2+ binding site [ion binding]; other site 334406005310 G-X-G motif; other site 334406005311 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 334406005312 classical (c) SDRs; Region: SDR_c; cd05233 334406005313 NAD(P) binding site [chemical binding]; other site 334406005314 active site 334406005315 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 334406005316 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406005317 S-adenosylmethionine binding site [chemical binding]; other site 334406005318 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 334406005319 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 334406005320 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 334406005321 NodB motif; other site 334406005322 active site 334406005323 catalytic site [active] 334406005324 metal binding site [ion binding]; metal-binding site 334406005325 SdpI/YhfL protein family; Region: SdpI; pfam13630 334406005326 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 334406005327 nudix motif; other site 334406005328 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 334406005329 homoserine dehydrogenase; Provisional; Region: PRK06349 334406005330 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 334406005331 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 334406005332 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 334406005333 threonine synthase; Reviewed; Region: PRK06721 334406005334 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 334406005335 homodimer interface [polypeptide binding]; other site 334406005336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406005337 catalytic residue [active] 334406005338 homoserine kinase; Provisional; Region: PRK01212 334406005339 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 334406005340 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 334406005341 Glycosyl hydrolases related to GH101 family; Region: GHL; pfam11308 334406005342 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 334406005343 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 334406005344 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 334406005345 NodB motif; other site 334406005346 active site 334406005347 catalytic site [active] 334406005348 Zn binding site [ion binding]; other site 334406005349 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 334406005350 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 334406005351 MgtC family; Region: MgtC; pfam02308 334406005352 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 334406005353 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005354 Coenzyme A binding pocket [chemical binding]; other site 334406005355 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 334406005356 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406005357 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406005358 putative substrate translocation pore; other site 334406005359 Lysine efflux permease [General function prediction only]; Region: COG1279 334406005360 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 334406005361 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406005362 DNA-binding site [nucleotide binding]; DNA binding site 334406005363 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406005364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406005365 homodimer interface [polypeptide binding]; other site 334406005366 catalytic residue [active] 334406005367 Protein of unknown function (DUF3933); Region: DUF3933; pfam13069 334406005368 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 334406005369 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 334406005370 active site 334406005371 nucleophile elbow; other site 334406005372 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 334406005373 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 334406005374 Domain of unknown function (DUF4083); Region: DUF4083; pfam13314 334406005375 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 334406005376 nudix motif; other site 334406005377 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 334406005378 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 334406005379 homodimer interface [polypeptide binding]; other site 334406005380 NAD binding pocket [chemical binding]; other site 334406005381 ATP binding pocket [chemical binding]; other site 334406005382 Mg binding site [ion binding]; other site 334406005383 active-site loop [active] 334406005384 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334406005385 FtsX-like permease family; Region: FtsX; pfam02687 334406005386 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 334406005387 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 334406005388 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 334406005389 active site 334406005390 catalytic residues [active] 334406005391 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 334406005392 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 334406005393 Walker A/P-loop; other site 334406005394 ATP binding site [chemical binding]; other site 334406005395 Q-loop/lid; other site 334406005396 ABC transporter signature motif; other site 334406005397 Walker B; other site 334406005398 D-loop; other site 334406005399 H-loop/switch region; other site 334406005400 TOBE domain; Region: TOBE_2; pfam08402 334406005401 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 334406005402 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 334406005403 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 334406005404 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family; Region: bind_CPR_0540; TIGR03850 334406005405 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 334406005406 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 334406005407 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406005408 dimer interface [polypeptide binding]; other site 334406005409 conserved gate region; other site 334406005410 putative PBP binding loops; other site 334406005411 ABC-ATPase subunit interface; other site 334406005412 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 334406005413 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406005414 dimer interface [polypeptide binding]; other site 334406005415 conserved gate region; other site 334406005416 putative PBP binding loops; other site 334406005417 ABC-ATPase subunit interface; other site 334406005418 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 334406005419 Lacto-N-biose phosphorylase; Region: Lact_bio_phlase; pfam09508 334406005420 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 334406005421 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 334406005422 nucleotide binding site [chemical binding]; other site 334406005423 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 334406005424 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 334406005425 dimer interface [polypeptide binding]; other site 334406005426 active site 334406005427 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 334406005428 putative active site [active] 334406005429 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 334406005430 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 334406005431 active site 334406005432 dimer interface [polypeptide binding]; other site 334406005433 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 334406005434 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 334406005435 putative substrate binding site [chemical binding]; other site 334406005436 putative ATP binding site [chemical binding]; other site 334406005437 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 334406005438 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 334406005439 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 334406005440 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 334406005441 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 334406005442 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 334406005443 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406005444 dimerization interface [polypeptide binding]; other site 334406005445 putative DNA binding site [nucleotide binding]; other site 334406005446 putative Zn2+ binding site [ion binding]; other site 334406005447 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 334406005448 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334406005449 active site 334406005450 catalytic tetrad [active] 334406005451 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 334406005452 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406005453 putative substrate translocation pore; other site 334406005454 Protein of unknown function (DUF4257); Region: DUF4257; pfam14074 334406005455 Protein of unknown function (DUF664); Region: DUF664; pfam04978 334406005456 DinB superfamily; Region: DinB_2; pfam12867 334406005457 GTPase RsgA; Reviewed; Region: PRK01889 334406005458 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 334406005459 RNA binding site [nucleotide binding]; other site 334406005460 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 334406005461 GTPase/Zn-binding domain interface [polypeptide binding]; other site 334406005462 GTP/Mg2+ binding site [chemical binding]; other site 334406005463 G4 box; other site 334406005464 G5 box; other site 334406005465 G1 box; other site 334406005466 Switch I region; other site 334406005467 G2 box; other site 334406005468 G3 box; other site 334406005469 Switch II region; other site 334406005470 Tar ligand binding domain homologue; Region: TarH; pfam02203 334406005471 Cache domain; Region: Cache_1; pfam02743 334406005472 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 334406005473 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406005474 dimerization interface [polypeptide binding]; other site 334406005475 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 334406005476 dimer interface [polypeptide binding]; other site 334406005477 putative CheW interface [polypeptide binding]; other site 334406005478 Protein of unknown function (DUF3979); Region: DUF3979; pfam13141 334406005479 Uncharacterized membrane protein [Function unknown]; Region: COG3949 334406005480 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 334406005481 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 334406005482 dimerization interface [polypeptide binding]; other site 334406005483 DPS ferroxidase diiron center [ion binding]; other site 334406005484 ion pore; other site 334406005485 Protein of unknown function (DUF3939); Region: DUF3939; pfam13075 334406005486 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 334406005487 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 334406005488 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 334406005489 Protein of unknown function (DUF3896); Region: DUF3896; pfam13035 334406005490 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 334406005491 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 334406005492 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406005493 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334406005494 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 334406005495 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334406005496 active site 334406005497 catalytic tetrad [active] 334406005498 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 334406005499 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 334406005500 P-loop, Walker A motif; other site 334406005501 Base recognition motif; other site 334406005502 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 334406005503 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 334406005504 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005505 Coenzyme A binding pocket [chemical binding]; other site 334406005506 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 334406005507 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 334406005508 metal binding site [ion binding]; metal-binding site 334406005509 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 334406005510 NADH(P)-binding; Region: NAD_binding_10; pfam13460 334406005511 NAD binding site [chemical binding]; other site 334406005512 active site 334406005513 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 334406005514 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 334406005515 active site 334406005516 FMN binding site [chemical binding]; other site 334406005517 substrate binding site [chemical binding]; other site 334406005518 homotetramer interface [polypeptide binding]; other site 334406005519 catalytic residue [active] 334406005520 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 334406005521 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 334406005522 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 334406005523 DNA binding site [nucleotide binding] 334406005524 active site 334406005525 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 334406005526 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 334406005527 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 334406005528 peptide binding site [polypeptide binding]; other site 334406005529 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 334406005530 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 334406005531 active site 334406005532 metal binding site [ion binding]; metal-binding site 334406005533 short chain dehydrogenase; Provisional; Region: PRK08309 334406005534 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 334406005535 catalytic core [active] 334406005536 CotH protein; Region: CotH; pfam08757 334406005537 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 334406005538 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 334406005539 nudix motif; other site 334406005540 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 334406005541 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 334406005542 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 334406005543 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 334406005544 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 334406005545 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 334406005546 Cl binding site [ion binding]; other site 334406005547 oligomer interface [polypeptide binding]; other site 334406005548 Predicted permeases [General function prediction only]; Region: COG0701 334406005549 Predicted membrane protein [Function unknown]; Region: COG3689 334406005550 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 334406005551 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 334406005552 PLD-like domain; Region: PLDc_2; pfam13091 334406005553 putative active site [active] 334406005554 catalytic site [active] 334406005555 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 334406005556 PLD-like domain; Region: PLDc_2; pfam13091 334406005557 putative active site [active] 334406005558 catalytic site [active] 334406005559 Coat F domain; Region: Coat_F; pfam07875 334406005560 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 334406005561 NADH(P)-binding; Region: NAD_binding_10; pfam13460 334406005562 NAD binding site [chemical binding]; other site 334406005563 substrate binding site [chemical binding]; other site 334406005564 putative active site [active] 334406005565 Protein of unknown function (DUF456); Region: DUF456; pfam04306 334406005566 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 334406005567 Domain of unknown function DUF21; Region: DUF21; pfam01595 334406005568 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 334406005569 Transporter associated domain; Region: CorC_HlyC; smart01091 334406005570 FOG: CBS domain [General function prediction only]; Region: COG0517 334406005571 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 334406005572 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 334406005573 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 334406005574 dimer interface [polypeptide binding]; other site 334406005575 putative tRNA-binding site [nucleotide binding]; other site 334406005576 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 334406005577 DinB superfamily; Region: DinB_2; pfam12867 334406005578 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 334406005579 stage II sporulation protein P; Region: spore_II_P; TIGR02867 334406005580 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406005581 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005582 Coenzyme A binding pocket [chemical binding]; other site 334406005583 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406005584 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 334406005585 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 334406005586 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 334406005587 nudix motif; other site 334406005588 amidase; Provisional; Region: PRK06828 334406005589 Amidase; Region: Amidase; pfam01425 334406005590 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406005591 putative substrate translocation pore; other site 334406005592 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406005593 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 334406005594 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 334406005595 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 334406005596 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 334406005597 catalytic core [active] 334406005598 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406005599 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334406005600 active site 334406005601 motif I; other site 334406005602 motif II; other site 334406005603 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406005604 DinB superfamily; Region: DinB_2; pfam12867 334406005605 DinB family; Region: DinB; cl17821 334406005606 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 334406005607 alanine racemase; Reviewed; Region: alr; PRK00053 334406005608 active site 334406005609 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 334406005610 dimer interface [polypeptide binding]; other site 334406005611 substrate binding site [chemical binding]; other site 334406005612 catalytic residues [active] 334406005613 Methyltransferase domain; Region: Methyltransf_31; pfam13847 334406005614 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406005615 S-adenosylmethionine binding site [chemical binding]; other site 334406005616 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005617 Coenzyme A binding pocket [chemical binding]; other site 334406005618 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005619 Coenzyme A binding pocket [chemical binding]; other site 334406005620 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 334406005621 active site 334406005622 ATP binding site [chemical binding]; other site 334406005623 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 334406005624 glycosyltransferase, MGT family; Region: MGT; TIGR01426 334406005625 active site 334406005626 TDP-binding site; other site 334406005627 acceptor substrate-binding pocket; other site 334406005628 homodimer interface [polypeptide binding]; other site 334406005629 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334406005630 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406005631 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 334406005632 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 334406005633 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406005634 DNA-binding site [nucleotide binding]; DNA binding site 334406005635 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406005636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406005637 homodimer interface [polypeptide binding]; other site 334406005638 catalytic residue [active] 334406005639 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005640 Coenzyme A binding pocket [chemical binding]; other site 334406005641 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334406005642 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 334406005643 active site 334406005644 metal binding site [ion binding]; metal-binding site 334406005645 Src Homology 3 domain superfamily; Region: SH3; cl17036 334406005646 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 334406005647 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005648 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334406005649 Coenzyme A binding pocket [chemical binding]; other site 334406005650 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406005651 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 334406005652 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 334406005653 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005654 Coenzyme A binding pocket [chemical binding]; other site 334406005655 Cupin domain; Region: Cupin_2; cl17218 334406005656 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005657 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 334406005658 Coenzyme A binding pocket [chemical binding]; other site 334406005659 Predicted acetyltransferase [General function prediction only]; Region: COG3393 334406005660 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005661 Coenzyme A binding pocket [chemical binding]; other site 334406005662 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 334406005663 Methyltransferase domain; Region: Methyltransf_23; pfam13489 334406005664 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406005665 S-adenosylmethionine binding site [chemical binding]; other site 334406005666 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 334406005667 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 334406005668 Potassium binding sites [ion binding]; other site 334406005669 Cesium cation binding sites [ion binding]; other site 334406005670 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 334406005671 DEAD-like helicases superfamily; Region: DEXDc; smart00487 334406005672 ATP binding site [chemical binding]; other site 334406005673 putative Mg++ binding site [ion binding]; other site 334406005674 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406005675 nucleotide binding region [chemical binding]; other site 334406005676 ATP-binding site [chemical binding]; other site 334406005677 integrase; Provisional; Region: int; PHA02601 334406005678 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 334406005679 Int/Topo IB signature motif; other site 334406005680 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 334406005681 sequence-specific DNA binding site [nucleotide binding]; other site 334406005682 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406005683 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406005684 non-specific DNA binding site [nucleotide binding]; other site 334406005685 salt bridge; other site 334406005686 sequence-specific DNA binding site [nucleotide binding]; other site 334406005687 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406005688 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406005689 non-specific DNA binding site [nucleotide binding]; other site 334406005690 salt bridge; other site 334406005691 sequence-specific DNA binding site [nucleotide binding]; other site 334406005692 Helix-turn-helix domain; Region: HTH_17; pfam12728 334406005693 phage conserved hypothetical protein, C-terminal domain; Region: phg_TIGR02220 334406005694 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 334406005695 Walker A motif; other site 334406005696 ATP binding site [chemical binding]; other site 334406005697 Walker B motif; other site 334406005698 arginine finger; other site 334406005699 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 334406005700 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 334406005701 Protein of unknown function (DUF3954); Region: DUF3954; pfam13128 334406005702 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 334406005703 putative metal binding site [ion binding]; other site 334406005704 YopX protein; Region: YopX; pfam09643 334406005705 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406005706 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406005707 non-specific DNA binding site [nucleotide binding]; other site 334406005708 salt bridge; other site 334406005709 sequence-specific DNA binding site [nucleotide binding]; other site 334406005710 Protein of unknown function (DUF3983); Region: DUF3983; pfam13137 334406005711 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 334406005712 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 334406005713 active site 334406005714 DNA binding site [nucleotide binding] 334406005715 Int/Topo IB signature motif; other site 334406005716 HNH endonuclease; Region: HNH; pfam01844 334406005717 active site 334406005718 Phage terminase, small subunit; Region: Terminase_4; pfam05119 334406005719 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 334406005720 Phage-related protein [Function unknown]; Region: COG4695 334406005721 Phage portal protein; Region: Phage_portal; pfam04860 334406005722 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 334406005723 oligomer interface [polypeptide binding]; other site 334406005724 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 334406005725 active site residues [active] 334406005726 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 334406005727 Phage capsid family; Region: Phage_capsid; pfam05065 334406005728 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 334406005729 oligomerization interface [polypeptide binding]; other site 334406005730 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 334406005731 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 334406005732 short chain acyl-CoA synthetase; Reviewed; Region: PRK06087 334406005733 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 334406005734 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 334406005735 putative phage tail component, N-terminal domain; Region: phi3626_gp14_N; TIGR01633 334406005736 Phage tail protein; Region: Sipho_tail; cl17486 334406005737 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 334406005738 Polyhydroxyalkanoic acid inclusion protein (PhaP_Bmeg); Region: PhaP_Bmeg; cl09820 334406005739 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 334406005740 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 334406005741 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 334406005742 active site 334406005743 catalytic residues [active] 334406005744 DNA binding site [nucleotide binding] 334406005745 Int/Topo IB signature motif; other site 334406005746 PlyB is a bacteriophage endolysin that displays potent lytic activity toward Bacillus anthracis. PlyB has an N-terminal glycosyl hydrolase family 25 (GH25) catalytic domain and a C-terminal bacterial SH3-like domain, SH3b. Both domains are required for...; Region: GH25_PlyB-like; cd06523 334406005747 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 334406005748 active site 334406005749 N-acetylmuramoyl-l-alanine amidase; Region: Amidase02_C; pfam12123 334406005750 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406005751 non-specific DNA binding site [nucleotide binding]; other site 334406005752 salt bridge; other site 334406005753 sequence-specific DNA binding site [nucleotide binding]; other site 334406005754 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 334406005755 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 334406005756 Replication-relaxation; Region: Replic_Relax; pfam13814 334406005757 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 334406005758 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 334406005759 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 334406005760 NADP binding site [chemical binding]; other site 334406005761 dimer interface [polypeptide binding]; other site 334406005762 RNA polymerase sigma factor; Provisional; Region: PRK12543 334406005763 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406005764 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406005765 DNA binding residues [nucleotide binding] 334406005766 Domain of unknown function (DUF3600); Region: DUF3600; pfam12207 334406005767 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406005768 Protein of unknown function (DUF3925); Region: DUF3925; pfam13063 334406005769 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 334406005770 catalytic residues [active] 334406005771 dimer interface [polypeptide binding]; other site 334406005772 Sulfate transporter family; Region: Sulfate_transp; pfam00916 334406005773 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 334406005774 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 334406005775 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 334406005776 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 334406005777 Protein of unknown function DUF58; Region: DUF58; pfam01882 334406005778 MoxR-like ATPases [General function prediction only]; Region: COG0714 334406005779 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406005780 Walker A motif; other site 334406005781 ATP binding site [chemical binding]; other site 334406005782 Walker B motif; other site 334406005783 arginine finger; other site 334406005784 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 334406005785 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 334406005786 [4Fe-4S] binding site [ion binding]; other site 334406005787 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 334406005788 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 334406005789 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 334406005790 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 334406005791 molybdopterin cofactor binding site; other site 334406005792 nitrate reductase, beta subunit; Region: narH; TIGR01660 334406005793 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 334406005794 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 334406005795 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 334406005796 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 334406005797 ligand binding site [chemical binding]; other site 334406005798 flexible hinge region; other site 334406005799 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 334406005800 putative switch regulator; other site 334406005801 non-specific DNA interactions [nucleotide binding]; other site 334406005802 DNA binding site [nucleotide binding] 334406005803 sequence specific DNA binding site [nucleotide binding]; other site 334406005804 putative cAMP binding site [chemical binding]; other site 334406005805 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 334406005806 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406005807 FeS/SAM binding site; other site 334406005808 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 334406005809 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional; Region: PRK12475 334406005810 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 334406005811 ATP binding site [chemical binding]; other site 334406005812 substrate interface [chemical binding]; other site 334406005813 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 334406005814 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 334406005815 dimer interface [polypeptide binding]; other site 334406005816 putative functional site; other site 334406005817 putative MPT binding site; other site 334406005818 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 334406005819 MoaE homodimer interface [polypeptide binding]; other site 334406005820 MoaD interaction [polypeptide binding]; other site 334406005821 active site residues [active] 334406005822 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 334406005823 MoaE interaction surface [polypeptide binding]; other site 334406005824 MoeB interaction surface [polypeptide binding]; other site 334406005825 thiocarboxylated glycine; other site 334406005826 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 334406005827 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406005828 putative substrate translocation pore; other site 334406005829 PspC domain; Region: PspC; pfam04024 334406005830 Predicted permeases [General function prediction only]; Region: COG0679 334406005831 precorrin-2 dehydrogenase; Validated; Region: PRK06719 334406005832 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 334406005833 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 334406005834 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 334406005835 putative active site [active] 334406005836 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 334406005837 putative active site [active] 334406005838 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed; Region: PRK07168 334406005839 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 334406005840 active site 334406005841 SAM binding site [chemical binding]; other site 334406005842 homodimer interface [polypeptide binding]; other site 334406005843 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 334406005844 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 334406005845 [2Fe-2S] cluster binding site [ion binding]; other site 334406005846 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 334406005847 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334406005848 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334406005849 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 334406005850 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 334406005851 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 334406005852 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 334406005853 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 334406005854 Hemerythrin-like domain; Region: Hr-like; cd12108 334406005855 Fe binding site [ion binding]; other site 334406005856 Excalibur calcium-binding domain; Region: Excalibur; smart00894 334406005857 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 334406005858 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 334406005859 PGAP1-like protein; Region: PGAP1; pfam07819 334406005860 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 334406005861 Protein of unknown function (DUF3954); Region: DUF3954; pfam13128 334406005862 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 334406005863 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334406005864 Zn2+ binding site [ion binding]; other site 334406005865 Mg2+ binding site [ion binding]; other site 334406005866 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 334406005867 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334406005868 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406005869 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406005870 ABC transporter; Region: ABC_tran_2; pfam12848 334406005871 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406005872 Bax inhibitor 1 like; Region: BaxI_1; cl17691 334406005873 Domain of unknown function (DUF4318); Region: DUF4318; pfam14201 334406005874 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 334406005875 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 334406005876 dimer interface [polypeptide binding]; other site 334406005877 ssDNA binding site [nucleotide binding]; other site 334406005878 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334406005879 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406005880 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406005881 hypothetical protein; Provisional; Region: PRK06753 334406005882 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 334406005883 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 334406005884 Virulence factor; Region: Virulence_fact; pfam13769 334406005885 HEAT repeats; Region: HEAT_2; pfam13646 334406005886 HEAT repeats; Region: HEAT_2; pfam13646 334406005887 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 334406005888 Protein of unknown function, DUF393; Region: DUF393; pfam04134 334406005889 Disulphide isomerase; Region: Disulph_isomer; pfam06491 334406005890 Brix domain; Region: Brix; cl00935 334406005891 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 334406005892 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 334406005893 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 334406005894 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 334406005895 active site 334406005896 HIGH motif; other site 334406005897 KMSK motif region; other site 334406005898 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 334406005899 tRNA binding surface [nucleotide binding]; other site 334406005900 anticodon binding site; other site 334406005901 Predicted membrane protein (DUF2085); Region: DUF2085; pfam09858 334406005902 Methyltransferase domain; Region: Methyltransf_12; pfam08242 334406005903 Methyltransferase domain; Region: Methyltransf_31; pfam13847 334406005904 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 334406005905 putative catalytic site [active] 334406005906 putative phosphate binding site [ion binding]; other site 334406005907 putative metal binding site [ion binding]; other site 334406005908 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 334406005909 putative active site [active] 334406005910 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406005911 binding surface 334406005912 TPR motif; other site 334406005913 TPR repeat; Region: TPR_11; pfam13414 334406005914 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406005915 binding surface 334406005916 TPR motif; other site 334406005917 Tetratricopeptide repeat; Region: TPR_16; pfam13432 334406005918 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406005919 binding surface 334406005920 TPR motif; other site 334406005921 TPR repeat; Region: TPR_11; pfam13414 334406005922 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406005923 TPR motif; other site 334406005924 TPR repeat; Region: TPR_11; pfam13414 334406005925 binding surface 334406005926 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406005927 binding surface 334406005928 TPR motif; other site 334406005929 Tetratricopeptide repeat; Region: TPR_16; pfam13432 334406005930 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406005931 binding surface 334406005932 TPR motif; other site 334406005933 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 334406005934 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 334406005935 HIGH motif; other site 334406005936 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 334406005937 active site 334406005938 KMSKS motif; other site 334406005939 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 334406005940 tRNA binding surface [nucleotide binding]; other site 334406005941 anticodon binding site; other site 334406005942 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 334406005943 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 334406005944 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 334406005945 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 334406005946 Zn binding site [ion binding]; other site 334406005947 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334406005948 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 334406005949 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334406005950 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334406005951 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 334406005952 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 334406005953 Dimer interface [polypeptide binding]; other site 334406005954 anticodon binding site; other site 334406005955 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 334406005956 homodimer interface [polypeptide binding]; other site 334406005957 motif 1; other site 334406005958 motif 2; other site 334406005959 active site 334406005960 motif 3; other site 334406005961 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 334406005962 Na2 binding site [ion binding]; other site 334406005963 putative substrate binding site 1 [chemical binding]; other site 334406005964 Na binding site 1 [ion binding]; other site 334406005965 putative substrate binding site 2 [chemical binding]; other site 334406005966 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 334406005967 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 334406005968 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 334406005969 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 334406005970 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406005971 motif II; other site 334406005972 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 334406005973 fructuronate transporter; Provisional; Region: PRK10034; cl15264 334406005974 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 334406005975 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 334406005976 active site 334406005977 NAD binding site [chemical binding]; other site 334406005978 metal binding site [ion binding]; metal-binding site 334406005979 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 334406005980 aspartate racemase; Region: asp_race; TIGR00035 334406005981 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 334406005982 homodimer interaction site [polypeptide binding]; other site 334406005983 cofactor binding site; other site 334406005984 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 334406005985 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005986 Coenzyme A binding pocket [chemical binding]; other site 334406005987 hypothetical protein; Validated; Region: PRK06769 334406005988 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406005989 active site 334406005990 motif I; other site 334406005991 motif II; other site 334406005992 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 334406005993 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406005994 Coenzyme A binding pocket [chemical binding]; other site 334406005995 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 334406005996 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334406005997 Walker A/P-loop; other site 334406005998 ATP binding site [chemical binding]; other site 334406005999 Q-loop/lid; other site 334406006000 ABC transporter signature motif; other site 334406006001 Walker B; other site 334406006002 D-loop; other site 334406006003 H-loop/switch region; other site 334406006004 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 334406006005 YpjP-like protein; Region: YpjP; pfam14005 334406006006 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 334406006007 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406006008 motif II; other site 334406006009 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 334406006010 active site 334406006011 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 334406006012 Phosphotransferase enzyme family; Region: APH; pfam01636 334406006013 substrate binding site [chemical binding]; other site 334406006014 Beta-lactamase; Region: Beta-lactamase; pfam00144 334406006015 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334406006016 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 334406006017 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 334406006018 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 334406006019 thymidylate synthase; Region: thym_sym; TIGR03284 334406006020 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 334406006021 dimerization interface [polypeptide binding]; other site 334406006022 active site 334406006023 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 334406006024 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 334406006025 folate binding site [chemical binding]; other site 334406006026 NADP+ binding site [chemical binding]; other site 334406006027 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 334406006028 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334406006029 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 334406006030 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334406006031 azoreductase; Reviewed; Region: PRK00170 334406006032 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 334406006033 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 334406006034 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 334406006035 putative acyl-acceptor binding pocket; other site 334406006036 Haemolysin-III related; Region: HlyIII; cl03831 334406006037 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 334406006038 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 334406006039 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 334406006040 Protein of unknown function (DUF2535); Region: DUF2535; pfam10751 334406006041 EDD domain protein, DegV family; Region: DegV; TIGR00762 334406006042 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 334406006043 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 334406006044 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 334406006045 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 334406006046 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 334406006047 Cu(I) binding site [ion binding]; other site 334406006048 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 334406006049 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 334406006050 putative dimer interface [polypeptide binding]; other site 334406006051 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 334406006052 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 334406006053 active site 334406006054 dimer interface [polypeptide binding]; other site 334406006055 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 334406006056 Ligand Binding Site [chemical binding]; other site 334406006057 Molecular Tunnel; other site 334406006058 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334406006059 PAP2_like_3 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria and archaea, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_3; cd03393 334406006060 active site 334406006061 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 334406006062 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 334406006063 siderophore binding site; other site 334406006064 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 334406006065 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 334406006066 homodimer interface [polypeptide binding]; other site 334406006067 substrate-cofactor binding pocket; other site 334406006068 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406006069 catalytic residue [active] 334406006070 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 334406006071 FMN binding site [chemical binding]; other site 334406006072 dimer interface [polypeptide binding]; other site 334406006073 Isochorismatase family; Region: Isochorismatase; pfam00857 334406006074 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 334406006075 catalytic triad [active] 334406006076 conserved cis-peptide bond; other site 334406006077 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 334406006078 nudix motif; other site 334406006079 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 334406006080 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 334406006081 putative dimer interface [polypeptide binding]; other site 334406006082 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 334406006083 Mechanosensitive ion channel; Region: MS_channel; pfam00924 334406006084 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 334406006085 GAF domain; Region: GAF; pfam01590 334406006086 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 334406006087 Histidine kinase; Region: HisKA_3; pfam07730 334406006088 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406006089 ATP binding site [chemical binding]; other site 334406006090 Mg2+ binding site [ion binding]; other site 334406006091 G-X-G motif; other site 334406006092 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 334406006093 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406006094 active site 334406006095 phosphorylation site [posttranslational modification] 334406006096 intermolecular recognition site; other site 334406006097 dimerization interface [polypeptide binding]; other site 334406006098 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 334406006099 DNA binding residues [nucleotide binding] 334406006100 dimerization interface [polypeptide binding]; other site 334406006101 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 334406006102 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 334406006103 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 334406006104 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 334406006105 putative active site [active] 334406006106 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 334406006107 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 334406006108 NAD binding site [chemical binding]; other site 334406006109 substrate binding site [chemical binding]; other site 334406006110 catalytic Zn binding site [ion binding]; other site 334406006111 tetramer interface [polypeptide binding]; other site 334406006112 structural Zn binding site [ion binding]; other site 334406006113 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 334406006114 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406006115 dimer interface [polypeptide binding]; other site 334406006116 conserved gate region; other site 334406006117 ABC-ATPase subunit interface; other site 334406006118 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406006119 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 334406006120 dimer interface [polypeptide binding]; other site 334406006121 conserved gate region; other site 334406006122 putative PBP binding loops; other site 334406006123 ABC-ATPase subunit interface; other site 334406006124 Beta-lactamase; Region: Beta-lactamase; pfam00144 334406006125 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334406006126 Erythromycin esterase; Region: Erythro_esteras; pfam05139 334406006127 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 334406006128 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 334406006129 active site 334406006130 Predicted flavoprotein [General function prediction only]; Region: COG0431 334406006131 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 334406006132 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406006133 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406006134 putative substrate translocation pore; other site 334406006135 potential frameshift: common BLAST hit: gi|222095875|ref|YP_002529932.1| cytoplasmic protein 334406006136 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 334406006137 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cl00630 334406006138 putative active site [active] 334406006139 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 334406006140 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 334406006141 Walker A/P-loop; other site 334406006142 ATP binding site [chemical binding]; other site 334406006143 Q-loop/lid; other site 334406006144 ABC transporter signature motif; other site 334406006145 Walker B; other site 334406006146 D-loop; other site 334406006147 H-loop/switch region; other site 334406006148 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406006149 dimer interface [polypeptide binding]; other site 334406006150 conserved gate region; other site 334406006151 ABC-ATPase subunit interface; other site 334406006152 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 334406006153 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 334406006154 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 334406006155 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 334406006156 Protein of unknown function (DUF524); Region: DUF524; pfam04411 334406006157 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 334406006158 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 334406006159 DNA binding residues [nucleotide binding] 334406006160 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 334406006161 Domain of unknown function DUF21; Region: DUF21; pfam01595 334406006162 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 334406006163 Transporter associated domain; Region: CorC_HlyC; smart01091 334406006164 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 334406006165 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 334406006166 NAD(P) binding site [chemical binding]; other site 334406006167 catalytic residues [active] 334406006168 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 334406006169 Histidine kinase N terminal; Region: HisK_N; pfam09385 334406006170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406006171 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406006172 dimer interface [polypeptide binding]; other site 334406006173 phosphorylation site [posttranslational modification] 334406006174 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406006175 ATP binding site [chemical binding]; other site 334406006176 Mg2+ binding site [ion binding]; other site 334406006177 G-X-G motif; other site 334406006178 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 334406006179 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 334406006180 hypothetical protein; Provisional; Region: PRK06917 334406006181 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 334406006182 inhibitor-cofactor binding pocket; inhibition site 334406006183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406006184 catalytic residue [active] 334406006185 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 334406006186 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 334406006187 acetylornithine deacetylase; Validated; Region: PRK06915 334406006188 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 334406006189 metal binding site [ion binding]; metal-binding site 334406006190 dimer interface [polypeptide binding]; other site 334406006191 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 334406006192 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406006193 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 334406006194 PAS fold; Region: PAS_4; pfam08448 334406006195 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 334406006196 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406006197 Walker A motif; other site 334406006198 ATP binding site [chemical binding]; other site 334406006199 Walker B motif; other site 334406006200 arginine finger; other site 334406006201 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 334406006202 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 334406006203 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406006204 FeS/SAM binding site; other site 334406006205 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 334406006206 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 334406006207 toxin interface [polypeptide binding]; other site 334406006208 Zn binding site [ion binding]; other site 334406006209 hypothetical protein; Provisional; Region: PRK13672 334406006210 Protein of unknown function (DUF3930); Region: DUF3930; pfam13067 334406006211 Protein of unknown function (DUF3930); Region: DUF3930; pfam13067 334406006212 YozD-like protein; Region: YozD; pfam14162 334406006213 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 334406006214 Catalytic domain of Protein Kinases; Region: PKc; cd00180 334406006215 active site 334406006216 ATP binding site [chemical binding]; other site 334406006217 substrate binding site [chemical binding]; other site 334406006218 activation loop (A-loop); other site 334406006219 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 334406006220 SpoOM protein; Region: Spo0M; pfam07070 334406006221 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 334406006222 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 334406006223 active site 334406006224 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 334406006225 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 334406006226 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 334406006227 catalytic residues [active] 334406006228 Protein of unknown function (DUF3956); Region: DUF3956; pfam13104 334406006229 CHRD domain; Region: CHRD; pfam07452 334406006230 RNA polymerase sigma factor SigM; Provisional; Region: PRK09644 334406006231 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406006232 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 334406006233 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 334406006234 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 334406006235 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 334406006236 C1q domain; Region: C1q; cl17543 334406006237 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 334406006238 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 334406006239 potential protein location (conserved hypothetical protein) that overlaps protein (conserved hypothetical protein) 334406006240 YolD-like protein; Region: YolD; pfam08863 334406006241 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 334406006242 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 334406006243 KTSC domain; Region: KTSC; pfam13619 334406006244 Transglycosylase; Region: Transgly; pfam00912 334406006245 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 334406006246 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334406006247 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406006248 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406006249 putative substrate translocation pore; other site 334406006250 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 334406006251 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1; cd06118 334406006252 dimer interface [polypeptide binding]; other site 334406006253 Citrate synthase; Region: Citrate_synt; pfam00285 334406006254 active site 334406006255 coenzyme A binding site [chemical binding]; other site 334406006256 citrylCoA binding site [chemical binding]; other site 334406006257 oxalacetate/citrate binding site [chemical binding]; other site 334406006258 catalytic triad [active] 334406006259 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 334406006260 2-methylcitrate dehydratase; Region: prpD; TIGR02330 334406006261 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 334406006262 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 334406006263 tetramer interface [polypeptide binding]; other site 334406006264 active site 334406006265 Mg2+/Mn2+ binding site [ion binding]; other site 334406006266 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 334406006267 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 334406006268 active site 334406006269 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 334406006270 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 334406006271 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 334406006272 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 334406006273 tetrameric interface [polypeptide binding]; other site 334406006274 NAD binding site [chemical binding]; other site 334406006275 catalytic residues [active] 334406006276 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 334406006277 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 334406006278 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 334406006279 substrate binding site [chemical binding]; other site 334406006280 oxyanion hole (OAH) forming residues; other site 334406006281 trimer interface [polypeptide binding]; other site 334406006282 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 334406006283 Protein of unknown function (DUF2584); Region: DUF2584; pfam10763 334406006284 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 334406006285 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 334406006286 active site 334406006287 metal binding site [ion binding]; metal-binding site 334406006288 DNA binding site [nucleotide binding] 334406006289 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 334406006290 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 334406006291 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 334406006292 Walker A/P-loop; other site 334406006293 ATP binding site [chemical binding]; other site 334406006294 Q-loop/lid; other site 334406006295 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 334406006296 ABC transporter signature motif; other site 334406006297 Walker B; other site 334406006298 D-loop; other site 334406006299 H-loop/switch region; other site 334406006300 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406006301 dimerization interface [polypeptide binding]; other site 334406006302 putative DNA binding site [nucleotide binding]; other site 334406006303 putative Zn2+ binding site [ion binding]; other site 334406006304 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; cl11556 334406006305 gp32 DNA binding protein like; Region: gp32; cl17537 334406006306 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 334406006307 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406006308 putative substrate translocation pore; other site 334406006309 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 334406006310 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 334406006311 putative NAD(P) binding site [chemical binding]; other site 334406006312 active site 334406006313 isochorismate synthase DhbC; Validated; Region: PRK06923 334406006314 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 334406006315 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 334406006316 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 334406006317 acyl-activating enzyme (AAE) consensus motif; other site 334406006318 active site 334406006319 AMP binding site [chemical binding]; other site 334406006320 substrate binding site [chemical binding]; other site 334406006321 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 334406006322 hydrophobic substrate binding pocket; other site 334406006323 Isochorismatase family; Region: Isochorismatase; pfam00857 334406006324 active site 334406006325 conserved cis-peptide bond; other site 334406006326 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 334406006327 Condensation domain; Region: Condensation; pfam00668 334406006328 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 334406006329 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 334406006330 acyl-activating enzyme (AAE) consensus motif; other site 334406006331 AMP binding site [chemical binding]; other site 334406006332 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 334406006333 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 334406006334 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 334406006335 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 334406006336 acyl-activating enzyme (AAE) consensus motif; other site 334406006337 AMP binding site [chemical binding]; other site 334406006338 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 334406006339 MbtH-like protein; Region: MbtH; cl01279 334406006340 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406006341 putative transporter; Provisional; Region: PRK10504 334406006342 putative substrate translocation pore; other site 334406006343 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 334406006344 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 334406006345 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 334406006346 IHF dimer interface [polypeptide binding]; other site 334406006347 IHF - DNA interface [nucleotide binding]; other site 334406006348 Protein of unknown function (DUF3891); Region: DUF3891; pfam13030 334406006349 DinB family; Region: DinB; cl17821 334406006350 DinB superfamily; Region: DinB_2; pfam12867 334406006351 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 334406006352 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 334406006353 active site 334406006354 catalytic triad [active] 334406006355 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 334406006356 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 334406006357 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 334406006358 metal binding triad [ion binding]; metal-binding site 334406006359 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 334406006360 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 334406006361 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 334406006362 RNA binding surface [nucleotide binding]; other site 334406006363 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 334406006364 probable active site [active] 334406006365 threonyl-tRNA synthetase; Reviewed; Region: PRK12444 334406006366 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 334406006367 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 334406006368 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 334406006369 active site 334406006370 dimer interface [polypeptide binding]; other site 334406006371 motif 1; other site 334406006372 motif 2; other site 334406006373 motif 3; other site 334406006374 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 334406006375 anticodon binding site; other site 334406006376 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406006377 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406006378 Walker A/P-loop; other site 334406006379 ATP binding site [chemical binding]; other site 334406006380 Q-loop/lid; other site 334406006381 ABC transporter signature motif; other site 334406006382 Walker B; other site 334406006383 D-loop; other site 334406006384 H-loop/switch region; other site 334406006385 FtsX-like permease family; Region: FtsX; pfam02687 334406006386 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406006387 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406006388 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 334406006389 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 334406006390 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406006391 dimer interface [polypeptide binding]; other site 334406006392 conserved gate region; other site 334406006393 ABC-ATPase subunit interface; other site 334406006394 pyruvate oxidase; Provisional; Region: PRK08611 334406006395 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 334406006396 PYR/PP interface [polypeptide binding]; other site 334406006397 dimer interface [polypeptide binding]; other site 334406006398 tetramer interface [polypeptide binding]; other site 334406006399 TPP binding site [chemical binding]; other site 334406006400 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 334406006401 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 334406006402 TPP-binding site [chemical binding]; other site 334406006403 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 334406006404 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 334406006405 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406006406 S-adenosylmethionine binding site [chemical binding]; other site 334406006407 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 334406006408 Protein of unknown function (DUF2185); Region: DUF2185; pfam09951 334406006409 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406006410 nuc_hydro_ TvIAG: Nucleoside hydrolases similar to the Inosine-adenosine-guanosine-preferring nucleoside hydrolase from Trypanosoma vivax. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_TvIAG; cd02647 334406006411 active site 334406006412 dimerization interface [polypeptide binding]; other site 334406006413 Protein of unknown function (DUF2441); Region: DUF2441; pfam10386 334406006414 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 334406006415 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406006416 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406006417 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406006418 MMPL family; Region: MMPL; pfam03176 334406006419 MMPL family; Region: MMPL; pfam03176 334406006420 Protein of unknown function (DUF4021); Region: DUF4021; pfam13213 334406006421 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406006422 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 334406006423 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406006424 Coenzyme A binding pocket [chemical binding]; other site 334406006425 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 334406006426 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406006427 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406006428 Coenzyme A binding pocket [chemical binding]; other site 334406006429 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 334406006430 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 334406006431 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 334406006432 putative acetyltransferase YhhY; Provisional; Region: PRK10140 334406006433 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406006434 Coenzyme A binding pocket [chemical binding]; other site 334406006435 EamA-like transporter family; Region: EamA; pfam00892 334406006436 EamA-like transporter family; Region: EamA; pfam00892 334406006437 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 334406006438 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406006439 non-specific DNA binding site [nucleotide binding]; other site 334406006440 salt bridge; other site 334406006441 sequence-specific DNA binding site [nucleotide binding]; other site 334406006442 Cupin domain; Region: Cupin_2; pfam07883 334406006443 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 334406006444 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334406006445 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 334406006446 protoporphyrinogen oxidase; Provisional; Region: PRK12416 334406006447 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 334406006448 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334406006449 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334406006450 Cold-inducible protein YdjO; Region: YdjO; pfam14169 334406006451 CAAX protease self-immunity; Region: Abi; pfam02517 334406006452 AAA domain; Region: AAA_17; pfam13207 334406006453 AAA domain; Region: AAA_18; pfam13238 334406006454 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 334406006455 active site 334406006456 metal binding site [ion binding]; metal-binding site 334406006457 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406006458 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334406006459 active site 334406006460 motif I; other site 334406006461 motif II; other site 334406006462 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406006463 hypothetical protein; Provisional; Region: PRK06770 334406006464 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406006465 MarR family; Region: MarR_2; cl17246 334406006466 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406006467 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 334406006468 putative substrate translocation pore; other site 334406006469 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334406006470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334406006471 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 334406006472 dimerization interface [polypeptide binding]; other site 334406006473 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06728 334406006474 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 334406006475 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 334406006476 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 334406006477 active site 334406006478 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 334406006479 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 334406006480 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334406006481 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 334406006482 dimerization interface [polypeptide binding]; other site 334406006483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 334406006484 MOSC domain; Region: MOSC; pfam03473 334406006485 3-alpha domain; Region: 3-alpha; pfam03475 334406006486 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406006487 Coenzyme A binding pocket [chemical binding]; other site 334406006488 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 334406006489 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334406006490 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334406006491 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406006492 Walker A/P-loop; other site 334406006493 ATP binding site [chemical binding]; other site 334406006494 Q-loop/lid; other site 334406006495 ABC transporter signature motif; other site 334406006496 Walker B; other site 334406006497 D-loop; other site 334406006498 H-loop/switch region; other site 334406006499 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334406006500 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334406006501 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 334406006502 Walker A/P-loop; other site 334406006503 ATP binding site [chemical binding]; other site 334406006504 Q-loop/lid; other site 334406006505 ABC transporter signature motif; other site 334406006506 Walker B; other site 334406006507 D-loop; other site 334406006508 H-loop/switch region; other site 334406006509 LysE type translocator; Region: LysE; cl00565 334406006510 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 334406006511 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406006512 non-specific DNA binding site [nucleotide binding]; other site 334406006513 salt bridge; other site 334406006514 sequence-specific DNA binding site [nucleotide binding]; other site 334406006515 Cupin domain; Region: Cupin_2; pfam07883 334406006516 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 334406006517 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 334406006518 BclB C-terminal domain; Region: exospore_TM; TIGR03721 334406006519 Cupin; Region: Cupin_1; smart00835 334406006520 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 334406006521 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 334406006522 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 334406006523 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406006524 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 334406006525 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 334406006526 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406006527 S-adenosylmethionine binding site [chemical binding]; other site 334406006528 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 334406006529 Domain of unknown function (DUF3974); Region: DUF3974; pfam13120 334406006530 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 334406006531 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 334406006532 active site 334406006533 P-loop; other site 334406006534 phosphorylation site [posttranslational modification] 334406006535 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 334406006536 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 334406006537 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 334406006538 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 334406006539 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 334406006540 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 334406006541 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 334406006542 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334406006543 catalytic residue [active] 334406006544 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 334406006545 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 334406006546 tetramer interface [polypeptide binding]; other site 334406006547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406006548 catalytic residue [active] 334406006549 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406006550 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 334406006551 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 334406006552 ATP binding site [chemical binding]; other site 334406006553 Mg++ binding site [ion binding]; other site 334406006554 motif III; other site 334406006555 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406006556 nucleotide binding region [chemical binding]; other site 334406006557 ATP-binding site [chemical binding]; other site 334406006558 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406006559 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406006560 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406006561 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406006562 putative substrate translocation pore; other site 334406006563 FtsX-like permease family; Region: FtsX; pfam02687 334406006564 FtsX-like permease family; Region: FtsX; pfam02687 334406006565 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406006566 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406006567 Walker A/P-loop; other site 334406006568 ATP binding site [chemical binding]; other site 334406006569 Q-loop/lid; other site 334406006570 ABC transporter signature motif; other site 334406006571 Walker B; other site 334406006572 D-loop; other site 334406006573 H-loop/switch region; other site 334406006574 Methyltransferase domain; Region: Methyltransf_23; pfam13489 334406006575 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406006576 S-adenosylmethionine binding site [chemical binding]; other site 334406006577 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 334406006578 dimer interface [polypeptide binding]; other site 334406006579 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 334406006580 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 334406006581 dimer interface [polypeptide binding]; other site 334406006582 PYR/PP interface [polypeptide binding]; other site 334406006583 TPP binding site [chemical binding]; other site 334406006584 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 334406006585 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 334406006586 TPP-binding site [chemical binding]; other site 334406006587 dimer interface [polypeptide binding]; other site 334406006588 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406006589 MarR family; Region: MarR_2; pfam12802 334406006590 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 334406006591 catalytic core [active] 334406006592 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 334406006593 Toxin SpoIISA, type II toxin-antitoxin system; Region: SpoIISA_toxin; pfam14171 334406006594 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 334406006595 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 334406006596 metal binding site [ion binding]; metal-binding site 334406006597 dimer interface [polypeptide binding]; other site 334406006598 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_1; cd01832 334406006599 active site 334406006600 catalytic triad [active] 334406006601 oxyanion hole [active] 334406006602 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 334406006603 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406006604 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406006605 DNA binding residues [nucleotide binding] 334406006606 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 334406006607 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334406006608 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334406006609 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 334406006610 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334406006611 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334406006612 beta-lactamase TEM; Provisional; Region: PRK15442 334406006613 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 334406006614 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 334406006615 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334406006616 putative active site [active] 334406006617 putative metal binding site [ion binding]; other site 334406006618 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334406006619 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 334406006620 Walker A/P-loop; other site 334406006621 ATP binding site [chemical binding]; other site 334406006622 Q-loop/lid; other site 334406006623 ABC transporter signature motif; other site 334406006624 Walker B; other site 334406006625 D-loop; other site 334406006626 H-loop/switch region; other site 334406006627 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 334406006628 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 334406006629 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406006630 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406006631 Protein of unknown function (DUF523); Region: DUF523; pfam04463 334406006632 Uncharacterized conserved protein [Function unknown]; Region: COG3272 334406006633 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 334406006634 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 334406006635 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 334406006636 FAD binding site [chemical binding]; other site 334406006637 homotetramer interface [polypeptide binding]; other site 334406006638 substrate binding pocket [chemical binding]; other site 334406006639 catalytic base [active] 334406006640 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 334406006641 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334406006642 ATP-grasp domain; Region: ATP-grasp_4; cl17255 334406006643 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 334406006644 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 334406006645 carboxyltransferase (CT) interaction site; other site 334406006646 biotinylation site [posttranslational modification]; other site 334406006647 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 334406006648 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 334406006649 active site 334406006650 catalytic residues [active] 334406006651 metal binding site [ion binding]; metal-binding site 334406006652 enoyl-CoA hydratase; Provisional; Region: PRK07657 334406006653 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 334406006654 substrate binding site [chemical binding]; other site 334406006655 oxyanion hole (OAH) forming residues; other site 334406006656 trimer interface [polypeptide binding]; other site 334406006657 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 334406006658 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 334406006659 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 334406006660 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 334406006661 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 334406006662 Uncharacterized acyl-CoA synthetase subfamily similar to Acetoacetyl-CoA synthetase; Region: AACS_like; cd05968 334406006663 acyl-activating enzyme (AAE) consensus motif; other site 334406006664 putative AMP binding site [chemical binding]; other site 334406006665 putative active site [active] 334406006666 putative CoA binding site [chemical binding]; other site 334406006667 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334406006668 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406006669 Coenzyme A binding pocket [chemical binding]; other site 334406006670 hypothetical protein; Provisional; Region: PRK08233 334406006671 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 334406006672 active site 334406006673 DinB family; Region: DinB; cl17821 334406006674 DinB superfamily; Region: DinB_2; pfam12867 334406006675 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 334406006676 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334406006677 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406006678 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406006679 dimer interface [polypeptide binding]; other site 334406006680 phosphorylation site [posttranslational modification] 334406006681 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406006682 ATP binding site [chemical binding]; other site 334406006683 Mg2+ binding site [ion binding]; other site 334406006684 G-X-G motif; other site 334406006685 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406006686 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406006687 active site 334406006688 phosphorylation site [posttranslational modification] 334406006689 intermolecular recognition site; other site 334406006690 dimerization interface [polypeptide binding]; other site 334406006691 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406006692 DNA binding site [nucleotide binding] 334406006693 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334406006694 Zn2+ binding site [ion binding]; other site 334406006695 Mg2+ binding site [ion binding]; other site 334406006696 Domain of unknown function (DUF3885); Region: DUF3885; pfam13021 334406006697 S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06714 334406006698 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 334406006699 NADH(P)-binding; Region: NAD_binding_10; pfam13460 334406006700 NAD binding site [chemical binding]; other site 334406006701 substrate binding site [chemical binding]; other site 334406006702 putative active site [active] 334406006703 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 334406006704 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406006705 Coenzyme A binding pocket [chemical binding]; other site 334406006706 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406006707 Coenzyme A binding pocket [chemical binding]; other site 334406006708 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 334406006709 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 334406006710 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 334406006711 active site 334406006712 Zn binding site [ion binding]; other site 334406006713 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 334406006714 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 334406006715 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 334406006716 putative hydrophobic ligand binding site [chemical binding]; other site 334406006717 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406006718 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 334406006719 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334406006720 Beta-lactamase; Region: Beta-lactamase; pfam00144 334406006721 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 334406006722 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 334406006723 DNA binding residues [nucleotide binding] 334406006724 drug binding residues [chemical binding]; other site 334406006725 dimer interface [polypeptide binding]; other site 334406006726 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 334406006727 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406006728 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406006729 putative substrate translocation pore; other site 334406006730 Methyltransferase domain; Region: Methyltransf_31; pfam13847 334406006731 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406006732 S-adenosylmethionine binding site [chemical binding]; other site 334406006733 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 334406006734 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 334406006735 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 334406006736 active site 334406006737 ATP binding site [chemical binding]; other site 334406006738 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 334406006739 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 334406006740 active site 334406006741 Zn binding site [ion binding]; other site 334406006742 Protein of unknown function (DUF4030); Region: DUF4030; pfam13222 334406006743 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 334406006744 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406006745 DNA-binding site [nucleotide binding]; DNA binding site 334406006746 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406006747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406006748 homodimer interface [polypeptide binding]; other site 334406006749 catalytic residue [active] 334406006750 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 334406006751 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 334406006752 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 334406006753 putative NAD(P) binding site [chemical binding]; other site 334406006754 Predicted membrane protein [Function unknown]; Region: COG2323 334406006755 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406006756 S-adenosylmethionine binding site [chemical binding]; other site 334406006757 Methyltransferase domain; Region: Methyltransf_31; pfam13847 334406006758 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334406006759 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334406006760 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 334406006761 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334406006762 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334406006763 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406006764 S-adenosylmethionine binding site [chemical binding]; other site 334406006765 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 334406006766 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 334406006767 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 334406006768 active site 334406006769 HIGH motif; other site 334406006770 KMSKS motif; other site 334406006771 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 334406006772 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 334406006773 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406006774 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406006775 active site 334406006776 phosphorylation site [posttranslational modification] 334406006777 intermolecular recognition site; other site 334406006778 dimerization interface [polypeptide binding]; other site 334406006779 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406006780 DNA binding site [nucleotide binding] 334406006781 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406006782 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 334406006783 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406006784 ATP binding site [chemical binding]; other site 334406006785 Mg2+ binding site [ion binding]; other site 334406006786 G-X-G motif; other site 334406006787 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334406006788 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406006789 ABC transporter; Region: ABC_tran_2; pfam12848 334406006790 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406006791 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406006792 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406006793 Walker A/P-loop; other site 334406006794 ATP binding site [chemical binding]; other site 334406006795 Q-loop/lid; other site 334406006796 ABC transporter signature motif; other site 334406006797 Walker B; other site 334406006798 D-loop; other site 334406006799 H-loop/switch region; other site 334406006800 FtsX-like permease family; Region: FtsX; pfam02687 334406006801 hypothetical protein; Provisional; Region: PRK06760 334406006802 Protein of unknown function (DUF3914); Region: DUF3914; pfam13053 334406006803 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 334406006804 homoserine dehydrogenase; Validated; Region: PRK06813 334406006805 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 334406006806 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 334406006807 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406006808 DNA-binding site [nucleotide binding]; DNA binding site 334406006809 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406006810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406006811 homodimer interface [polypeptide binding]; other site 334406006812 catalytic residue [active] 334406006813 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 334406006814 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 334406006815 ATP-grasp domain; Region: ATP-grasp_4; cl17255 334406006816 Putative transcription activator [Transcription]; Region: TenA; COG0819 334406006817 probable heterocycle-containing bacteriocin, BA_2677 family; Region: B_an_ocin; TIGR03601 334406006818 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 334406006819 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 334406006820 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 334406006821 Uncharacterized conserved protein [Function unknown]; Region: COG5444 334406006822 Protein of unknown function (DUF3962); Region: DUF3962; pfam13111 334406006823 Domain of unknown function (DUF3893); Region: DUF3893; pfam13032 334406006824 Protein of unknown function (DUF3959); Region: DUF3959; pfam13105 334406006825 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 334406006826 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 334406006827 Protein of unknown function; Region: DUF3658; pfam12395 334406006828 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 334406006829 Cytochrome P450; Region: p450; cl12078 334406006830 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406006831 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406006832 putative substrate translocation pore; other site 334406006833 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406006834 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 334406006835 trimer interface [polypeptide binding]; other site 334406006836 active site 334406006837 substrate binding site [chemical binding]; other site 334406006838 CoA binding site [chemical binding]; other site 334406006839 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 334406006840 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406006841 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 334406006842 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406006843 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334406006844 active site 334406006845 motif I; other site 334406006846 motif II; other site 334406006847 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 334406006848 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406006849 PAS domain; Region: PAS_9; pfam13426 334406006850 putative active site [active] 334406006851 heme pocket [chemical binding]; other site 334406006852 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 334406006853 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406006854 dimer interface [polypeptide binding]; other site 334406006855 phosphorylation site [posttranslational modification] 334406006856 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406006857 ATP binding site [chemical binding]; other site 334406006858 Mg2+ binding site [ion binding]; other site 334406006859 G-X-G motif; other site 334406006860 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 334406006861 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334406006862 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334406006863 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334406006864 glycosyltransferase, MGT family; Region: MGT; TIGR01426 334406006865 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 334406006866 aspartate racemase; Region: asp_race; TIGR00035 334406006867 hypothetical protein; Provisional; Region: PRK13661 334406006868 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 334406006869 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334406006870 Walker A/P-loop; other site 334406006871 ATP binding site [chemical binding]; other site 334406006872 Q-loop/lid; other site 334406006873 ABC transporter signature motif; other site 334406006874 Walker B; other site 334406006875 D-loop; other site 334406006876 H-loop/switch region; other site 334406006877 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 334406006878 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334406006879 Walker A/P-loop; other site 334406006880 ATP binding site [chemical binding]; other site 334406006881 Q-loop/lid; other site 334406006882 ABC transporter signature motif; other site 334406006883 Walker B; other site 334406006884 D-loop; other site 334406006885 H-loop/switch region; other site 334406006886 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 334406006887 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 334406006888 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406006889 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406006890 dimer interface [polypeptide binding]; other site 334406006891 phosphorylation site [posttranslational modification] 334406006892 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406006893 ATP binding site [chemical binding]; other site 334406006894 Mg2+ binding site [ion binding]; other site 334406006895 G-X-G motif; other site 334406006896 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 334406006897 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 334406006898 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 334406006899 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 334406006900 NAD(P) binding site [chemical binding]; other site 334406006901 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 334406006902 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 334406006903 active site 334406006904 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 334406006905 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334406006906 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334406006907 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 334406006908 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 334406006909 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406006910 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406006911 QacR-like protein, C-terminal region; Region: TetR_C_5; pfam08360 334406006912 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 334406006913 classical (c) SDRs; Region: SDR_c; cd05233 334406006914 NAD(P) binding site [chemical binding]; other site 334406006915 active site 334406006916 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406006917 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406006918 putative substrate translocation pore; other site 334406006919 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334406006920 Beta-lactamase; Region: Beta-lactamase; pfam00144 334406006921 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334406006922 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 334406006923 EDD domain protein, DegV family; Region: DegV; TIGR00762 334406006924 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 334406006925 Putative amidotransferase; Region: DUF4066; pfam13278 334406006926 conserved cys residue [active] 334406006927 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg1; cd04777 334406006928 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 334406006929 DNA binding residues [nucleotide binding] 334406006930 putative dimer interface [polypeptide binding]; other site 334406006931 Trm112p-like protein; Region: Trm112p; pfam03966 334406006932 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406006933 S-adenosylmethionine binding site [chemical binding]; other site 334406006934 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406006935 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406006936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406006937 Coenzyme A binding pocket [chemical binding]; other site 334406006938 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 334406006939 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 334406006940 active site 334406006941 catalytic site [active] 334406006942 metal binding site [ion binding]; metal-binding site 334406006943 active site 334406006944 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 334406006945 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 334406006946 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 334406006947 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406006948 DNA-binding site [nucleotide binding]; DNA binding site 334406006949 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406006950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406006951 homodimer interface [polypeptide binding]; other site 334406006952 catalytic residue [active] 334406006953 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 334406006954 EamA-like transporter family; Region: EamA; pfam00892 334406006955 EamA-like transporter family; Region: EamA; pfam00892 334406006956 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406006957 Coenzyme A binding pocket [chemical binding]; other site 334406006958 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 334406006959 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 334406006960 nudix motif; other site 334406006961 probable heterocycle-containing bacteriocin, BA_2677 family; Region: B_an_ocin; TIGR03601 334406006962 Beta-lactamase; Region: Beta-lactamase; pfam00144 334406006963 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334406006964 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 334406006965 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406006966 putative substrate translocation pore; other site 334406006967 Cadmium resistance transporter; Region: Cad; pfam03596 334406006968 cadmium resistance transporter (or sequestration) family protein; Region: cad; TIGR00779 334406006969 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 334406006970 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406006971 Coenzyme A binding pocket [chemical binding]; other site 334406006972 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 334406006973 nudix motif; other site 334406006974 DNA polymerase III subunit beta; Validated; Region: PRK06673 334406006975 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 334406006976 putative DNA binding surface [nucleotide binding]; other site 334406006977 dimer interface [polypeptide binding]; other site 334406006978 beta-clamp/clamp loader binding surface; other site 334406006979 beta-clamp/translesion DNA polymerase binding surface; other site 334406006980 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 334406006981 putative active site [active] 334406006982 nucleotide binding site [chemical binding]; other site 334406006983 nudix motif; other site 334406006984 putative metal binding site [ion binding]; other site 334406006985 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 334406006986 DNA-directed RNA polymerase subunit A''; Provisional; Region: PRK14898 334406006987 translation initiation factor IF-2; Provisional; Region: PRK14845 334406006988 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 334406006989 homotrimer interaction site [polypeptide binding]; other site 334406006990 putative active site [active] 334406006991 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 334406006992 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 334406006993 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 334406006994 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 334406006995 YxiJ-like protein; Region: YxiJ; pfam14176 334406006996 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 334406006997 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 334406006998 active site 334406006999 nucleophile elbow; other site 334406007000 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 334406007001 pentamer interface [polypeptide binding]; other site 334406007002 dodecaamer interface [polypeptide binding]; other site 334406007003 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007004 Coenzyme A binding pocket [chemical binding]; other site 334406007005 metal-dependent hydrolase; Provisional; Region: PRK13291 334406007006 DinB superfamily; Region: DinB_2; pfam12867 334406007007 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406007008 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334406007009 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 334406007010 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 334406007011 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 334406007012 GIY-YIG motif/motif A; other site 334406007013 active site 334406007014 catalytic site [active] 334406007015 putative DNA binding site [nucleotide binding]; other site 334406007016 metal binding site [ion binding]; metal-binding site 334406007017 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406007018 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406007019 Coenzyme A binding pocket [chemical binding]; other site 334406007020 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 334406007021 nudix motif; other site 334406007022 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 334406007023 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 334406007024 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 334406007025 N-acetyltransferase; Region: Acetyltransf_2; cl00949 334406007026 MepB protein; Region: MepB; pfam08877 334406007027 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 334406007028 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 334406007029 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406007030 motif II; other site 334406007031 DinB superfamily; Region: DinB_2; pfam12867 334406007032 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 334406007033 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 334406007034 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 334406007035 active site 334406007036 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 334406007037 carbohydrate binding site [chemical binding]; other site 334406007038 pullulanase, type I; Region: pulA_typeI; TIGR02104 334406007039 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 334406007040 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 334406007041 Ca binding site [ion binding]; other site 334406007042 active site 334406007043 catalytic site [active] 334406007044 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 334406007045 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 334406007046 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 334406007047 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 334406007048 active site 334406007049 Zn binding site [ion binding]; other site 334406007050 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 334406007051 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 334406007052 active site 334406007053 metal binding site [ion binding]; metal-binding site 334406007054 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406007055 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK12907 334406007056 SecY translocase; Region: SecY; pfam00344 334406007057 hypothetical protein; Validated; Region: PRK06672 334406007058 DnaA N-terminal domain; Region: DnaA_N; pfam11638 334406007059 DnaA N-terminal domain; Region: DnaA_N; pfam11638 334406007060 DnaA N-terminal domain; Region: DnaA_N; pfam11638 334406007061 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 334406007062 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 334406007063 TAP-like protein; Region: Abhydrolase_4; pfam08386 334406007064 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 334406007065 Mg binding site [ion binding]; other site 334406007066 nucleotide binding site [chemical binding]; other site 334406007067 putative protofilament interface [polypeptide binding]; other site 334406007068 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 334406007069 Predicted membrane protein [Function unknown]; Region: COG4129 334406007070 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 334406007071 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334406007072 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 334406007073 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 334406007074 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 334406007075 germination protein YpeB; Region: spore_YpeB; TIGR02889 334406007076 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 334406007077 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 334406007078 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 334406007079 Protein of unknown function (DUF3889); Region: DUF3889; pfam13028 334406007080 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334406007081 Beta-lactamase; Region: Beta-lactamase; pfam00144 334406007082 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 334406007083 arylformamidase; Region: trp_arylform; TIGR03035 334406007084 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 334406007085 kynureninase; Region: kynureninase; TIGR01814 334406007086 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334406007087 catalytic residue [active] 334406007088 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406007089 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406007090 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 334406007091 nudix motif; other site 334406007092 N-acetyltransferase; Region: Acetyltransf_2; cl00949 334406007093 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 334406007094 hydrophobic ligand binding site; other site 334406007095 Protein of unknown function (DUF3977); Region: DUF3977; pfam13122 334406007096 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 334406007097 GAF domain; Region: GAF; pfam01590 334406007098 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406007099 Walker A motif; other site 334406007100 ATP binding site [chemical binding]; other site 334406007101 Walker B motif; other site 334406007102 arginine finger; other site 334406007103 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 334406007104 NIPSNAP; Region: NIPSNAP; pfam07978 334406007105 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 334406007106 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007107 Coenzyme A binding pocket [chemical binding]; other site 334406007108 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 334406007109 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 334406007110 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 334406007111 dihydrolipoamide dehydrogenase; Validated; Region: acoL; PRK06912 334406007112 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334406007113 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334406007114 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 334406007115 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 334406007116 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 334406007117 E3 interaction surface; other site 334406007118 lipoyl attachment site [posttranslational modification]; other site 334406007119 e3 binding domain; Region: E3_binding; pfam02817 334406007120 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 334406007121 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 334406007122 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 334406007123 alpha subunit interface [polypeptide binding]; other site 334406007124 TPP binding site [chemical binding]; other site 334406007125 heterodimer interface [polypeptide binding]; other site 334406007126 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334406007127 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 334406007128 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 334406007129 tetramer interface [polypeptide binding]; other site 334406007130 TPP-binding site [chemical binding]; other site 334406007131 heterodimer interface [polypeptide binding]; other site 334406007132 phosphorylation loop region [posttranslational modification] 334406007133 DinB superfamily; Region: DinB_2; pfam12867 334406007134 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 334406007135 short chain dehydrogenase; Provisional; Region: PRK06914 334406007136 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 334406007137 NADP binding site [chemical binding]; other site 334406007138 active site 334406007139 steroid binding site; other site 334406007140 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 334406007141 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 334406007142 active site 334406007143 Domain of unknown function (DUF4181); Region: DUF4181; pfam13789 334406007144 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 334406007145 nudix motif; other site 334406007146 Domain of unknown function (DUF4181); Region: DUF4181; pfam13789 334406007147 Protein phosphatase 2C; Region: PP2C_2; pfam13672 334406007148 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 334406007149 nucleotide binding site/active site [active] 334406007150 HIT family signature motif; other site 334406007151 catalytic residue [active] 334406007152 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406007153 dimer interface [polypeptide binding]; other site 334406007154 conserved gate region; other site 334406007155 putative PBP binding loops; other site 334406007156 ABC-ATPase subunit interface; other site 334406007157 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 334406007158 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 334406007159 Walker A/P-loop; other site 334406007160 ATP binding site [chemical binding]; other site 334406007161 Q-loop/lid; other site 334406007162 ABC transporter signature motif; other site 334406007163 Walker B; other site 334406007164 D-loop; other site 334406007165 H-loop/switch region; other site 334406007166 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 334406007167 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 334406007168 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 334406007169 Clp protease; Region: CLP_protease; pfam00574 334406007170 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 334406007171 oligomer interface [polypeptide binding]; other site 334406007172 active site residues [active] 334406007173 RNA polymerase factor sigma-70; Validated; Region: PRK06704 334406007174 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406007175 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 334406007176 DNA binding residues [nucleotide binding] 334406007177 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 334406007178 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 334406007179 catalytic loop [active] 334406007180 iron binding site [ion binding]; other site 334406007181 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 334406007182 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334406007183 active site 334406007184 dimer interface [polypeptide binding]; other site 334406007185 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007186 Coenzyme A binding pocket [chemical binding]; other site 334406007187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 334406007188 Chitin binding domain; Region: Chitin_bind_3; pfam03067 334406007189 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 334406007190 Interdomain contacts; other site 334406007191 Cytokine receptor motif; other site 334406007192 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 334406007193 Interdomain contacts; other site 334406007194 Cytokine receptor motif; other site 334406007195 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 334406007196 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 334406007197 glycosyltransferase, MGT family; Region: MGT; TIGR01426 334406007198 active site 334406007199 TDP-binding site; other site 334406007200 acceptor substrate-binding pocket; other site 334406007201 homodimer interface [polypeptide binding]; other site 334406007202 Uncharacterized conserved protein [Function unknown]; Region: COG1262 334406007203 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 334406007204 topology modulation protein; Reviewed; Region: PRK08118 334406007205 AAA domain; Region: AAA_17; pfam13207 334406007206 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 334406007207 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406007208 S-adenosylmethionine binding site [chemical binding]; other site 334406007209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 334406007210 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007211 Coenzyme A binding pocket [chemical binding]; other site 334406007212 S-layer homology domain; Region: SLH; pfam00395 334406007213 S-layer homology domain; Region: SLH; pfam00395 334406007214 S-layer homology domain; Region: SLH; pfam00395 334406007215 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 334406007216 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406007217 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 334406007218 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007219 Coenzyme A binding pocket [chemical binding]; other site 334406007220 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 334406007221 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007222 Coenzyme A binding pocket [chemical binding]; other site 334406007223 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406007224 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 334406007225 Protein of unknown function (DUF952); Region: DUF952; pfam06108 334406007226 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 334406007227 Part of AAA domain; Region: AAA_19; pfam13245 334406007228 Family description; Region: UvrD_C_2; pfam13538 334406007229 CAAX protease self-immunity; Region: Abi; pfam02517 334406007230 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406007231 S-adenosylmethionine binding site [chemical binding]; other site 334406007232 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 334406007233 putative active site pocket [active] 334406007234 dimerization interface [polypeptide binding]; other site 334406007235 putative catalytic residue [active] 334406007236 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 334406007237 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 334406007238 ATP binding site [chemical binding]; other site 334406007239 putative Mg++ binding site [ion binding]; other site 334406007240 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406007241 nucleotide binding region [chemical binding]; other site 334406007242 ATP-binding site [chemical binding]; other site 334406007243 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 334406007244 HRDC domain; Region: HRDC; pfam00570 334406007245 PlyB is a bacteriophage endolysin that displays potent lytic activity toward Bacillus anthracis. PlyB has an N-terminal glycosyl hydrolase family 25 (GH25) catalytic domain and a C-terminal bacterial SH3-like domain, SH3b. Both domains are required for...; Region: GH25_PlyB-like; cd06523 334406007246 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 334406007247 active site 334406007248 N-acetylmuramoyl-l-alanine amidase; Region: Amidase02_C; pfam12123 334406007249 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 334406007250 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 334406007251 active site 334406007252 metal binding site [ion binding]; metal-binding site 334406007253 N-acetylmuramoyl-l-alanine amidase; Region: Amidase02_C; pfam12123 334406007254 Protein of unknown function (DUF4017); Region: DUF4017; pfam13209 334406007255 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 334406007256 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 334406007257 active site 334406007258 Zn binding site [ion binding]; other site 334406007259 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 334406007260 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 334406007261 DHHA2 domain; Region: DHHA2; pfam02833 334406007262 Chitin binding domain; Region: Chitin_bind_3; pfam03067 334406007263 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 334406007264 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007265 Coenzyme A binding pocket [chemical binding]; other site 334406007266 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406007267 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334406007268 Zn2+ binding site [ion binding]; other site 334406007269 Mg2+ binding site [ion binding]; other site 334406007270 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 334406007271 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 334406007272 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 334406007273 ALDH subfamily: ALDH families 1and 2, including 10-formyltetrahydrofolate dehydrogenase, NAD+-dependent retinal dehydrogenase 1 and related proteins; Region: ALDH_F1-2_Ald2-like; cd07091 334406007274 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 334406007275 NAD(P) binding site [chemical binding]; other site 334406007276 catalytic residues [active] 334406007277 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 334406007278 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 334406007279 inhibitor site; inhibition site 334406007280 active site 334406007281 dimer interface [polypeptide binding]; other site 334406007282 catalytic residue [active] 334406007283 Proline racemase; Region: Pro_racemase; pfam05544 334406007284 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 334406007285 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 334406007286 Proline racemase; Region: Pro_racemase; pfam05544 334406007287 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 334406007288 hydroxyglutarate oxidase; Provisional; Region: PRK11728 334406007289 PAS domain; Region: PAS; smart00091 334406007290 PAS domain; Region: PAS_9; pfam13426 334406007291 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406007292 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 334406007293 Walker A motif; other site 334406007294 ATP binding site [chemical binding]; other site 334406007295 Walker B motif; other site 334406007296 arginine finger; other site 334406007297 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 334406007298 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 334406007299 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406007300 Walker A/P-loop; other site 334406007301 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 334406007302 catalytic loop [active] 334406007303 iron binding site [ion binding]; other site 334406007304 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 334406007305 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 334406007306 Protein of unknown function (DUF2653); Region: DUF2653; pfam10850 334406007307 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 334406007308 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 334406007309 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 334406007310 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 334406007311 DltD N-terminal region; Region: DltD_N; pfam04915 334406007312 DltD central region; Region: DltD_M; pfam04918 334406007313 DltD C-terminal region; Region: DltD_C; pfam04914 334406007314 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406007315 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007316 Coenzyme A binding pocket [chemical binding]; other site 334406007317 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 334406007318 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 334406007319 peptide binding site [polypeptide binding]; other site 334406007320 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 334406007321 NlpC/P60 family; Region: NLPC_P60; pfam00877 334406007322 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 334406007323 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 334406007324 active site 334406007325 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 334406007326 Septum formation initiator; Region: DivIC; pfam04977 334406007327 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 334406007328 DJ-1 family protein; Region: not_thiJ; TIGR01383 334406007329 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 334406007330 conserved cys residue [active] 334406007331 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 334406007332 active site 334406007333 catalytic motif [active] 334406007334 Zn binding site [ion binding]; other site 334406007335 Methyltransferase domain; Region: Methyltransf_23; pfam13489 334406007336 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406007337 S-adenosylmethionine binding site [chemical binding]; other site 334406007338 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 334406007339 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 334406007340 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406007341 dimerization interface [polypeptide binding]; other site 334406007342 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406007343 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406007344 dimer interface [polypeptide binding]; other site 334406007345 phosphorylation site [posttranslational modification] 334406007346 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406007347 ATP binding site [chemical binding]; other site 334406007348 Mg2+ binding site [ion binding]; other site 334406007349 G-X-G motif; other site 334406007350 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406007351 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406007352 active site 334406007353 phosphorylation site [posttranslational modification] 334406007354 intermolecular recognition site; other site 334406007355 dimerization interface [polypeptide binding]; other site 334406007356 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406007357 DNA binding site [nucleotide binding] 334406007358 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334406007359 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 334406007360 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406007361 motif II; other site 334406007362 bifunctional 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase/phosphatase; Provisional; Region: PRK14697 334406007363 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 334406007364 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 334406007365 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 334406007366 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 334406007367 Zn binding site [ion binding]; other site 334406007368 EDD domain protein, DegV family; Region: DegV; TIGR00762 334406007369 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 334406007370 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 334406007371 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 334406007372 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 334406007373 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007374 Coenzyme A binding pocket [chemical binding]; other site 334406007375 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 334406007376 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406007377 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406007378 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406007379 putative substrate translocation pore; other site 334406007380 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406007381 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 334406007382 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 334406007383 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 334406007384 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 334406007385 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 334406007386 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 334406007387 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406007388 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406007389 putative substrate translocation pore; other site 334406007390 Domain of unknown function (DUF4309); Region: DUF4309; pfam14172 334406007391 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 334406007392 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cd00455 334406007393 active site 334406007394 Protein of unknown function (DUF3970); Region: DUF3970; pfam13113 334406007395 Methyltransferase domain; Region: Methyltransf_31; pfam13847 334406007396 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406007397 S-adenosylmethionine binding site [chemical binding]; other site 334406007398 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406007399 putative substrate translocation pore; other site 334406007400 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406007401 aspartate aminotransferase; Provisional; Region: PRK07681 334406007402 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406007403 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406007404 homodimer interface [polypeptide binding]; other site 334406007405 catalytic residue [active] 334406007406 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 334406007407 pantothenate kinase; Provisional; Region: PRK13317 334406007408 pantothenate kinase, eukaryotic/staphyloccocal type; Region: panK_eukar; TIGR00555 334406007409 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 334406007410 Protein of unknown function (DUF1453); Region: DUF1453; pfam07301 334406007411 Protein of unknown function (DUF4052); Region: DUF4052; pfam13261 334406007412 Bacillus tandem small hypothetical protein; Region: Bac_small_yrzI; TIGR02413 334406007413 Bacillus tandem small hypothetical protein; Region: Bac_small_yrzI; TIGR02413 334406007414 Bacillus tandem small hypothetical protein; Region: Bac_small_yrzI; TIGR02413 334406007415 Probable sporulation protein (Bac_small_yrzI); Region: Bac_small_YrzI; pfam09501 334406007416 Probable sporulation protein (Bac_small_yrzI); Region: Bac_small_YrzI; pfam09501 334406007417 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 334406007418 Domain of unknown function DUF20; Region: UPF0118; pfam01594 334406007419 HNH endonuclease; Region: HNH_5; pfam14279 334406007420 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 334406007421 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 334406007422 active site 334406007423 dimer interface [polypeptide binding]; other site 334406007424 non-prolyl cis peptide bond; other site 334406007425 insertion regions; other site 334406007426 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 334406007427 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 334406007428 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 334406007429 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 334406007430 substrate binding pocket [chemical binding]; other site 334406007431 membrane-bound complex binding site; other site 334406007432 hinge residues; other site 334406007433 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 334406007434 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 334406007435 Walker A/P-loop; other site 334406007436 ATP binding site [chemical binding]; other site 334406007437 Q-loop/lid; other site 334406007438 ABC transporter signature motif; other site 334406007439 Walker B; other site 334406007440 D-loop; other site 334406007441 H-loop/switch region; other site 334406007442 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406007443 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406007444 Protein of unknown function (DUF402); Region: DUF402; pfam04167 334406007445 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 334406007446 binding surface 334406007447 TPR motif; other site 334406007448 hypothetical protein; Provisional; Region: PRK09620 334406007449 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 334406007450 Glutathionylspermidine synthase preATP-grasp; Region: GSP_synth; cl00503 334406007451 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 334406007452 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 334406007453 Coenzyme A binding pocket [chemical binding]; other site 334406007454 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 334406007455 Protein of unknown function (DUF664); Region: DUF664; pfam04978 334406007456 DinB superfamily; Region: DinB_2; pfam12867 334406007457 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 334406007458 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007459 Coenzyme A binding pocket [chemical binding]; other site 334406007460 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406007461 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334406007462 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 334406007463 active site 334406007464 NTP binding site [chemical binding]; other site 334406007465 metal binding triad [ion binding]; metal-binding site 334406007466 antibiotic binding site [chemical binding]; other site 334406007467 A new structural DNA glycosylase; Region: AlkD_like; cd06561 334406007468 active site 334406007469 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 334406007470 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406007471 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 334406007472 active site 334406007473 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 334406007474 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 334406007475 NodB motif; other site 334406007476 active site 334406007477 catalytic site [active] 334406007478 Zn binding site [ion binding]; other site 334406007479 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 334406007480 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 334406007481 Sulfatase; Region: Sulfatase; pfam00884 334406007482 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 334406007483 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406007484 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406007485 ABC transporter; Region: ABC_tran_2; pfam12848 334406007486 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406007487 hypothetical protein; Provisional; Region: PRK06761 334406007488 MMPL family; Region: MMPL; pfam03176 334406007489 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 334406007490 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406007491 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406007492 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 334406007493 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007494 Coenzyme A binding pocket [chemical binding]; other site 334406007495 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 334406007496 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 334406007497 hinge; other site 334406007498 active site 334406007499 prephenate dehydrogenase; Validated; Region: PRK06545 334406007500 prephenate dehydrogenase; Validated; Region: PRK08507 334406007501 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 334406007502 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 334406007503 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406007504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406007505 homodimer interface [polypeptide binding]; other site 334406007506 catalytic residue [active] 334406007507 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 334406007508 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 334406007509 Tetramer interface [polypeptide binding]; other site 334406007510 active site 334406007511 FMN-binding site [chemical binding]; other site 334406007512 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 334406007513 Chorismate mutase type II; Region: CM_2; cl00693 334406007514 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 334406007515 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 334406007516 Domain of unknown function (DUF4020); Region: DUF4020; pfam13212 334406007517 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 334406007518 Isochorismatase family; Region: Isochorismatase; pfam00857 334406007519 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 334406007520 catalytic triad [active] 334406007521 conserved cis-peptide bond; other site 334406007522 YfzA-like protein; Region: YfzA; pfam14118 334406007523 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406007524 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406007525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 334406007526 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; pfam10094 334406007527 malate:quinone oxidoreductase; Validated; Region: PRK05257 334406007528 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 334406007529 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 334406007530 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 334406007531 ligand binding site [chemical binding]; other site 334406007532 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 334406007533 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 334406007534 TM-ABC transporter signature motif; other site 334406007535 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 334406007536 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 334406007537 TM-ABC transporter signature motif; other site 334406007538 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 334406007539 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 334406007540 Walker A/P-loop; other site 334406007541 ATP binding site [chemical binding]; other site 334406007542 Q-loop/lid; other site 334406007543 ABC transporter signature motif; other site 334406007544 Walker B; other site 334406007545 D-loop; other site 334406007546 H-loop/switch region; other site 334406007547 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 334406007548 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 334406007549 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 334406007550 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 334406007551 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 334406007552 putative N- and C-terminal domain interface [polypeptide binding]; other site 334406007553 putative active site [active] 334406007554 putative MgATP binding site [chemical binding]; other site 334406007555 catalytic site [active] 334406007556 metal binding site [ion binding]; metal-binding site 334406007557 putative carbohydrate binding site [chemical binding]; other site 334406007558 Cupin domain; Region: Cupin_2; pfam07883 334406007559 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 334406007560 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 334406007561 putative active site; other site 334406007562 catalytic residue [active] 334406007563 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 334406007564 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 334406007565 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406007566 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406007567 putative substrate translocation pore; other site 334406007568 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406007569 putative DNA binding site [nucleotide binding]; other site 334406007570 putative Zn2+ binding site [ion binding]; other site 334406007571 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 334406007572 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 334406007573 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 334406007574 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 334406007575 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 334406007576 putative catalytic cysteine [active] 334406007577 gamma-glutamyl kinase; Provisional; Region: PRK05429 334406007578 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 334406007579 nucleotide binding site [chemical binding]; other site 334406007580 homotetrameric interface [polypeptide binding]; other site 334406007581 putative phosphate binding site [ion binding]; other site 334406007582 putative allosteric binding site; other site 334406007583 PUA domain; Region: PUA; pfam01472 334406007584 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK12491 334406007585 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 334406007586 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 334406007587 putative metal binding site [ion binding]; other site 334406007588 putative dimer interface [polypeptide binding]; other site 334406007589 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 334406007590 Transcriptional regulator [Transcription]; Region: IclR; COG1414 334406007591 Bacterial transcriptional regulator; Region: IclR; pfam01614 334406007592 S-methylmethionine transporter; Provisional; Region: PRK11387 334406007593 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 334406007594 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 334406007595 Fatty acid desaturase; Region: FA_desaturase; pfam00487 334406007596 putative di-iron ligands [ion binding]; other site 334406007597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 334406007598 Immune inhibitor A peptidase M6; Region: Peptidase_M6; pfam05547 334406007599 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 334406007600 dimer interface [polypeptide binding]; other site 334406007601 Alkaline phosphatase homologues; Region: alkPPc; smart00098 334406007602 active site 334406007603 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 334406007604 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406007605 salt bridge; other site 334406007606 non-specific DNA binding site [nucleotide binding]; other site 334406007607 sequence-specific DNA binding site [nucleotide binding]; other site 334406007608 Protein of unknown function (DUF3887); Region: DUF3887; pfam13026 334406007609 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 334406007610 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 334406007611 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 334406007612 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 334406007613 active site 334406007614 phosphorylation site [posttranslational modification] 334406007615 intermolecular recognition site; other site 334406007616 LytTr DNA-binding domain; Region: LytTR; pfam04397 334406007617 uridine kinase; Provisional; Region: PRK07667 334406007618 active site 334406007619 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406007620 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007621 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406007622 Coenzyme A binding pocket [chemical binding]; other site 334406007623 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406007624 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 334406007625 active site 334406007626 metal binding site [ion binding]; metal-binding site 334406007627 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 334406007628 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406007629 Transcriptional regulator PadR-like family; Region: PadR; cl17335 334406007630 MoxR-like ATPases [General function prediction only]; Region: COG0714 334406007631 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406007632 Walker A motif; other site 334406007633 ATP binding site [chemical binding]; other site 334406007634 Walker B motif; other site 334406007635 arginine finger; other site 334406007636 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 334406007637 Protein of unknown function DUF58; Region: DUF58; pfam01882 334406007638 Domain of unknown function (DUF4018); Region: DUF4018; pfam13210 334406007639 proline/glycine betaine transporter; Provisional; Region: PRK10642 334406007640 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406007641 putative substrate translocation pore; other site 334406007642 acetylornithine aminotransferase; Provisional; Region: PRK02627 334406007643 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 334406007644 inhibitor-cofactor binding pocket; inhibition site 334406007645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406007646 catalytic residue [active] 334406007647 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 334406007648 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 334406007649 tetramer interface [polypeptide binding]; other site 334406007650 heme binding pocket [chemical binding]; other site 334406007651 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 334406007652 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406007653 dimer interface [polypeptide binding]; other site 334406007654 conserved gate region; other site 334406007655 putative PBP binding loops; other site 334406007656 ABC-ATPase subunit interface; other site 334406007657 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 334406007658 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 334406007659 Walker A/P-loop; other site 334406007660 ATP binding site [chemical binding]; other site 334406007661 Q-loop/lid; other site 334406007662 ABC transporter signature motif; other site 334406007663 Walker B; other site 334406007664 D-loop; other site 334406007665 H-loop/switch region; other site 334406007666 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 334406007667 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 334406007668 membrane-bound complex binding site; other site 334406007669 hinge residues; other site 334406007670 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 334406007671 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406007672 MarR family; Region: MarR_2; pfam12802 334406007673 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 334406007674 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 334406007675 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 334406007676 active site 334406007677 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 334406007678 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334406007679 Beta-lactamase; Region: Beta-lactamase; pfam00144 334406007680 Protein of unknown function (DUF3902); Region: DUF3902; pfam13042 334406007681 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 334406007682 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 334406007683 Protein of unknown function DUF58; Region: DUF58; pfam01882 334406007684 MoxR-like ATPases [General function prediction only]; Region: COG0714 334406007685 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406007686 Walker A motif; other site 334406007687 ATP binding site [chemical binding]; other site 334406007688 Walker B motif; other site 334406007689 arginine finger; other site 334406007690 Uncharacterized conserved protein [Function unknown]; Region: COG1359 334406007691 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 334406007692 dimer interface [polypeptide binding]; other site 334406007693 FMN binding site [chemical binding]; other site 334406007694 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406007695 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406007696 putative DNA binding site [nucleotide binding]; other site 334406007697 putative Zn2+ binding site [ion binding]; other site 334406007698 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 334406007699 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 334406007700 G1 box; other site 334406007701 putative GEF interaction site [polypeptide binding]; other site 334406007702 GTP/Mg2+ binding site [chemical binding]; other site 334406007703 Switch I region; other site 334406007704 G2 box; other site 334406007705 G3 box; other site 334406007706 Switch II region; other site 334406007707 G4 box; other site 334406007708 G5 box; other site 334406007709 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 334406007710 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 334406007711 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 334406007712 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 334406007713 nudix motif; other site 334406007714 YfzA-like protein; Region: YfzA; pfam14118 334406007715 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 334406007716 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334406007717 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334406007718 Walker A/P-loop; other site 334406007719 ATP binding site [chemical binding]; other site 334406007720 Q-loop/lid; other site 334406007721 ABC transporter signature motif; other site 334406007722 Walker B; other site 334406007723 D-loop; other site 334406007724 H-loop/switch region; other site 334406007725 Predicted transcriptional regulators [Transcription]; Region: COG1725 334406007726 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406007727 DNA-binding site [nucleotide binding]; DNA binding site 334406007728 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 334406007729 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 334406007730 putative NAD(P) binding site [chemical binding]; other site 334406007731 active site 334406007732 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406007733 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406007734 Walker A/P-loop; other site 334406007735 ATP binding site [chemical binding]; other site 334406007736 Q-loop/lid; other site 334406007737 ABC transporter signature motif; other site 334406007738 Walker B; other site 334406007739 D-loop; other site 334406007740 H-loop/switch region; other site 334406007741 FtsX-like permease family; Region: FtsX; pfam02687 334406007742 FtsX-like permease family; Region: FtsX; pfam02687 334406007743 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334406007744 Beta-lactamase; Region: Beta-lactamase; pfam00144 334406007745 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 334406007746 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334406007747 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 334406007748 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 334406007749 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007750 Coenzyme A binding pocket [chemical binding]; other site 334406007751 Domain of unknown function (DUF3980); Region: DUF3980; pfam13140 334406007752 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 334406007753 nudix motif; other site 334406007754 EamA-like transporter family; Region: EamA; pfam00892 334406007755 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 334406007756 EamA-like transporter family; Region: EamA; pfam00892 334406007757 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 334406007758 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406007759 DNA-binding site [nucleotide binding]; DNA binding site 334406007760 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406007761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406007762 homodimer interface [polypeptide binding]; other site 334406007763 catalytic residue [active] 334406007764 hypothetical protein; Validated; Region: PRK00124 334406007765 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 334406007766 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 334406007767 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 334406007768 active site 334406007769 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 334406007770 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334406007771 active site 334406007772 metal binding site [ion binding]; metal-binding site 334406007773 Phosphotransferase enzyme family; Region: APH; pfam01636 334406007774 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 334406007775 active site 334406007776 substrate binding site [chemical binding]; other site 334406007777 ATP binding site [chemical binding]; other site 334406007778 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 334406007779 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 334406007780 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406007781 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007782 Coenzyme A binding pocket [chemical binding]; other site 334406007783 lysine transporter; Provisional; Region: PRK10836 334406007784 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 334406007785 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 334406007786 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 334406007787 DNA binding residues [nucleotide binding] 334406007788 dimer interface [polypeptide binding]; other site 334406007789 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 334406007790 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 334406007791 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406007792 S-adenosylmethionine binding site [chemical binding]; other site 334406007793 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 334406007794 FIC domain binding interface [polypeptide binding]; other site 334406007795 Cache domain; Region: Cache_2; cl07034 334406007796 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 334406007797 putative active site [active] 334406007798 nucleotide binding site [chemical binding]; other site 334406007799 nudix motif; other site 334406007800 putative metal binding site [ion binding]; other site 334406007801 Cephalosporin hydroxylase; Region: CmcI; pfam04989 334406007802 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 334406007803 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 334406007804 Catalytic site [active] 334406007805 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 334406007806 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334406007807 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334406007808 NAD-dependent deacetylase; Provisional; Region: PRK00481 334406007809 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2_Af2; cd01413 334406007810 NAD+ binding site [chemical binding]; other site 334406007811 substrate binding site [chemical binding]; other site 334406007812 Zn binding site [ion binding]; other site 334406007813 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 334406007814 putative substrate binding pocket [chemical binding]; other site 334406007815 AC domain interface; other site 334406007816 catalytic triad [active] 334406007817 AB domain interface; other site 334406007818 interchain disulfide; other site 334406007819 Predicted membrane protein [Function unknown]; Region: COG3817 334406007820 Protein of unknown function (DUF979); Region: DUF979; pfam06166 334406007821 Protein of unknown function (DUF969); Region: DUF969; pfam06149 334406007822 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 334406007823 putative active site [active] 334406007824 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 334406007825 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 334406007826 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 334406007827 Transcriptional regulator [Transcription]; Region: IclR; COG1414 334406007828 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 334406007829 Bacterial transcriptional regulator; Region: IclR; pfam01614 334406007830 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 334406007831 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 334406007832 Catalytic site [active] 334406007833 CutC family; Region: CutC; cl01218 334406007834 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 334406007835 stage II sporulation protein P; Region: spore_II_P; TIGR02867 334406007836 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406007837 dimerization interface [polypeptide binding]; other site 334406007838 putative DNA binding site [nucleotide binding]; other site 334406007839 putative Zn2+ binding site [ion binding]; other site 334406007840 DinB superfamily; Region: DinB_2; pfam12867 334406007841 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406007842 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406007843 putative substrate translocation pore; other site 334406007844 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 334406007845 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 334406007846 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 334406007847 Uncharacterized conserved protein [Function unknown]; Region: COG1434 334406007848 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 334406007849 putative active site [active] 334406007850 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334406007851 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334406007852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 334406007853 Nucleoside recognition; Region: Gate; pfam07670 334406007854 S-layer homology domain; Region: SLH; pfam00395 334406007855 S-layer homology domain; Region: SLH; pfam00395 334406007856 S-layer homology domain; Region: SLH; pfam00395 334406007857 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 334406007858 putative active site [active] 334406007859 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007860 Coenzyme A binding pocket [chemical binding]; other site 334406007861 Protein of unknown function (DUF2691); Region: DUF2691; pfam10903 334406007862 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 334406007863 Ferritin-like domain; Region: Ferritin; pfam00210 334406007864 dinuclear metal binding motif [ion binding]; other site 334406007865 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 334406007866 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 334406007867 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406007868 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406007869 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 334406007870 phosphoenolpyruvate synthase; Validated; Region: PRK06241 334406007871 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 334406007872 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 334406007873 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 334406007874 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406007875 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 334406007876 Predicted membrane protein (DUF2243); Region: DUF2243; pfam10002 334406007877 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 334406007878 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 334406007879 LysE type translocator; Region: LysE; pfam01810 334406007880 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 334406007881 Spore germination protein; Region: Spore_permease; cl17796 334406007882 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 334406007883 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 334406007884 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 334406007885 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 334406007886 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 334406007887 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 334406007888 NAD binding site [chemical binding]; other site 334406007889 catalytic Zn binding site [ion binding]; other site 334406007890 structural Zn binding site [ion binding]; other site 334406007891 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 334406007892 dimanganese center [ion binding]; other site 334406007893 potential frameshift: common BLAST hit: gi|301054625|ref|YP_003792836.1| aspartate ammonia-lyase 334406007894 Aspartase; Region: Aspartase; cd01357 334406007895 active sites [active] 334406007896 tetramer interface [polypeptide binding]; other site 334406007897 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 334406007898 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 334406007899 active site 334406007900 homodimer interface [polypeptide binding]; other site 334406007901 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406007902 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406007903 non-specific DNA binding site [nucleotide binding]; other site 334406007904 salt bridge; other site 334406007905 sequence-specific DNA binding site [nucleotide binding]; other site 334406007906 Integrase core domain; Region: rve_3; cl15866 334406007907 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 334406007908 GIY-YIG motif/motif A; other site 334406007909 active site 334406007910 catalytic site [active] 334406007911 putative DNA binding site [nucleotide binding]; other site 334406007912 metal binding site [ion binding]; metal-binding site 334406007913 amino acid transporter; Region: 2A0306; TIGR00909 334406007914 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 334406007915 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK12491 334406007916 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 334406007917 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 334406007918 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 334406007919 Spore germination protein; Region: Spore_permease; pfam03845 334406007920 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 334406007921 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406007922 Response regulator receiver domain; Region: Response_reg; pfam00072 334406007923 active site 334406007924 phosphorylation site [posttranslational modification] 334406007925 intermolecular recognition site; other site 334406007926 dimerization interface [polypeptide binding]; other site 334406007927 YcbB domain; Region: YcbB; pfam08664 334406007928 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406007929 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406007930 ATP binding site [chemical binding]; other site 334406007931 Mg2+ binding site [ion binding]; other site 334406007932 G-X-G motif; other site 334406007933 glutaminase; Reviewed; Region: PRK12357 334406007934 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 334406007935 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 334406007936 amino acid carrier protein; Region: agcS; TIGR00835 334406007937 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 334406007938 transmembrane helices; other site 334406007939 Cytochrome P450; Region: p450; cl12078 334406007940 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334406007941 Beta-lactamase; Region: Beta-lactamase; pfam00144 334406007942 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 334406007943 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 334406007944 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 334406007945 [2Fe-2S] cluster binding site [ion binding]; other site 334406007946 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 334406007947 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 334406007948 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 334406007949 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 334406007950 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 334406007951 putative active site [active] 334406007952 putative metal binding site [ion binding]; other site 334406007953 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 334406007954 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 334406007955 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 334406007956 tetramer interface [polypeptide binding]; other site 334406007957 heme binding pocket [chemical binding]; other site 334406007958 Escherichia coli CorA-Salmonella typhimurium ZntB_like family; Region: EcCorA_ZntB-like; cd12821 334406007959 Cl binding site [ion binding]; other site 334406007960 oligomer interface [polypeptide binding]; other site 334406007961 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 334406007962 plasmid segregation protein ParM; Provisional; Region: PRK13917 334406007963 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 334406007964 Mg binding site [ion binding]; other site 334406007965 nucleotide binding site [chemical binding]; other site 334406007966 putative protofilament interface [polypeptide binding]; other site 334406007967 Heat induced stress protein YflT; Region: YflT; pfam11181 334406007968 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 334406007969 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 334406007970 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 334406007971 TspO/MBR family; Region: TspO_MBR; pfam03073 334406007972 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 334406007973 DNA photolyase; Region: DNA_photolyase; pfam00875 334406007974 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 334406007975 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 334406007976 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 334406007977 active site clefts [active] 334406007978 Carbonic anhydrase; Region: Pro_CA; pfam00484 334406007979 zinc binding site [ion binding]; other site 334406007980 dimer interface [polypeptide binding]; other site 334406007981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 334406007982 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 334406007983 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 334406007984 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 334406007985 Uncharacterized conserved protein (DUF2294); Region: DUF2294; pfam10057 334406007986 Spore germination protein; Region: Spore_permease; cl17796 334406007987 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 334406007988 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 334406007989 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 334406007990 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406007991 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406007992 Coenzyme A binding pocket [chemical binding]; other site 334406007993 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional; Region: PRK13387 334406007994 UbiA prenyltransferase family; Region: UbiA; pfam01040 334406007995 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 334406007996 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 334406007997 Phosphotransferase enzyme family; Region: APH; pfam01636 334406007998 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 334406007999 active site 334406008000 ATP binding site [chemical binding]; other site 334406008001 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 334406008002 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 334406008003 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 334406008004 short chain dehydrogenase; Validated; Region: PRK08324 334406008005 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 334406008006 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 334406008007 putative NAD(P) binding site [chemical binding]; other site 334406008008 active site 334406008009 L-fucose isomerase; Provisional; Region: fucI; PRK10991 334406008010 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 334406008011 hexamer (dimer of trimers) interface [polypeptide binding]; other site 334406008012 trimer interface [polypeptide binding]; other site 334406008013 substrate binding site [chemical binding]; other site 334406008014 Mn binding site [ion binding]; other site 334406008015 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 334406008016 N- and C-terminal domain interface [polypeptide binding]; other site 334406008017 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 334406008018 active site 334406008019 putative catalytic site [active] 334406008020 metal binding site [ion binding]; metal-binding site 334406008021 ATP binding site [chemical binding]; other site 334406008022 carbohydrate binding site [chemical binding]; other site 334406008023 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 334406008024 active site 334406008025 intersubunit interface [polypeptide binding]; other site 334406008026 Zn2+ binding site [ion binding]; other site 334406008027 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 334406008028 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 334406008029 putative ligand binding site [chemical binding]; other site 334406008030 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 334406008031 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 334406008032 TM-ABC transporter signature motif; other site 334406008033 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 334406008034 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 334406008035 Walker A/P-loop; other site 334406008036 ATP binding site [chemical binding]; other site 334406008037 Q-loop/lid; other site 334406008038 ABC transporter signature motif; other site 334406008039 Walker B; other site 334406008040 D-loop; other site 334406008041 H-loop/switch region; other site 334406008042 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 334406008043 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 334406008044 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334406008045 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334406008046 DNA binding site [nucleotide binding] 334406008047 domain linker motif; other site 334406008048 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 334406008049 dimerization interface [polypeptide binding]; other site 334406008050 ligand binding site [chemical binding]; other site 334406008051 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 334406008052 Low molecular weight phosphatase family; Region: LMWPc; cd00115 334406008053 active site 334406008054 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 334406008055 arsenical-resistance protein; Region: acr3; TIGR00832 334406008056 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406008057 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_20; cd07254 334406008058 putative metal binding site [ion binding]; other site 334406008059 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406008060 dimerization interface [polypeptide binding]; other site 334406008061 putative DNA binding site [nucleotide binding]; other site 334406008062 putative Zn2+ binding site [ion binding]; other site 334406008063 DinB superfamily; Region: DinB_2; pfam12867 334406008064 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 334406008065 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 334406008066 RibD C-terminal domain; Region: RibD_C; cl17279 334406008067 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 334406008068 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 334406008069 FtsX-like permease family; Region: FtsX; pfam02687 334406008070 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 334406008071 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334406008072 FtsX-like permease family; Region: FtsX; pfam02687 334406008073 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406008074 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406008075 Walker A/P-loop; other site 334406008076 ATP binding site [chemical binding]; other site 334406008077 Q-loop/lid; other site 334406008078 ABC transporter signature motif; other site 334406008079 Walker B; other site 334406008080 D-loop; other site 334406008081 H-loop/switch region; other site 334406008082 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 334406008083 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 334406008084 active site 334406008085 NTP binding site [chemical binding]; other site 334406008086 metal binding triad [ion binding]; metal-binding site 334406008087 antibiotic binding site [chemical binding]; other site 334406008088 HEPN domain; Region: HEPN; cl00824 334406008089 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 334406008090 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 334406008091 putative NAD(P) binding site [chemical binding]; other site 334406008092 active site 334406008093 putative substrate binding site [chemical binding]; other site 334406008094 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334406008095 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406008096 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406008097 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 334406008098 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406008099 putative substrate translocation pore; other site 334406008100 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406008101 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406008102 short chain dehydrogenase; Provisional; Region: PRK12746 334406008103 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 334406008104 NADP binding site [chemical binding]; other site 334406008105 homodimer interface [polypeptide binding]; other site 334406008106 active site 334406008107 substrate binding site [chemical binding]; other site 334406008108 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 334406008109 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406008110 putative DNA binding site [nucleotide binding]; other site 334406008111 putative Zn2+ binding site [ion binding]; other site 334406008112 AsnC family; Region: AsnC_trans_reg; pfam01037 334406008113 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 334406008114 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 334406008115 metal binding site [ion binding]; metal-binding site 334406008116 AAA domain; Region: AAA_11; pfam13086 334406008117 Part of AAA domain; Region: AAA_19; pfam13245 334406008118 Erp protein C-terminus; Region: Erp_C; pfam06780 334406008119 AAA domain; Region: AAA_30; pfam13604 334406008120 AAA domain; Region: AAA_12; pfam13087 334406008121 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 334406008122 putative active site [active] 334406008123 catalytic site [active] 334406008124 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406008125 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 334406008126 active site 334406008127 metal binding site [ion binding]; metal-binding site 334406008128 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 334406008129 putative monooxygenase; Provisional; Region: PRK11118 334406008130 DoxX-like family; Region: DoxX_2; pfam13564 334406008131 Transcriptional regulators [Transcription]; Region: MarR; COG1846 334406008132 MarR family; Region: MarR_2; pfam12802 334406008133 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 334406008134 Cytochrome P450; Region: p450; pfam00067 334406008135 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 334406008136 Flavodoxin; Region: Flavodoxin_1; pfam00258 334406008137 These bifunctional proteins fuse N-terminal cytochrome p450 with a cytochrome p450 reductase (CYPOR). NADPH cytochrome p450 reductase serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine...; Region: bifunctional_CYPOR; cd06206 334406008138 FAD binding pocket [chemical binding]; other site 334406008139 FAD binding motif [chemical binding]; other site 334406008140 catalytic residues [active] 334406008141 NAD binding pocket [chemical binding]; other site 334406008142 phosphate binding motif [ion binding]; other site 334406008143 beta-alpha-beta structure motif; other site 334406008144 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 334406008145 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406008146 putative substrate translocation pore; other site 334406008147 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406008148 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 334406008149 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 334406008150 ATP-grasp domain; Region: ATP-grasp_4; cl17255 334406008151 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406008152 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406008153 putative substrate translocation pore; other site 334406008154 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 334406008155 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 334406008156 D-cysteine desulfhydrase; Validated; Region: PRK03910 334406008157 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 334406008158 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334406008159 catalytic residue [active] 334406008160 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 334406008161 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334406008162 active site 334406008163 metal binding site [ion binding]; metal-binding site 334406008164 Domain of unknown function (DUF4073); Region: DUF4073; pfam13285 334406008165 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 334406008166 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 334406008167 CAAX protease self-immunity; Region: Abi; pfam02517 334406008168 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 334406008169 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 334406008170 DNA binding residues [nucleotide binding] 334406008171 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 334406008172 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 334406008173 hypothetical protein; Provisional; Region: PRK06762 334406008174 AAA domain; Region: AAA_33; pfam13671 334406008175 Fibrinogen alpha/beta chain family; Region: Fib_alpha; pfam08702 334406008176 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406008177 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406008178 Walker A/P-loop; other site 334406008179 ATP binding site [chemical binding]; other site 334406008180 Q-loop/lid; other site 334406008181 ABC transporter signature motif; other site 334406008182 Walker B; other site 334406008183 D-loop; other site 334406008184 H-loop/switch region; other site 334406008185 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 334406008186 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334406008187 FtsX-like permease family; Region: FtsX; pfam02687 334406008188 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406008189 dimerization interface [polypeptide binding]; other site 334406008190 putative DNA binding site [nucleotide binding]; other site 334406008191 putative Zn2+ binding site [ion binding]; other site 334406008192 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406008193 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406008194 putative substrate translocation pore; other site 334406008195 DinB superfamily; Region: DinB_2; pfam12867 334406008196 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406008197 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406008198 dimerization interface [polypeptide binding]; other site 334406008199 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406008200 dimer interface [polypeptide binding]; other site 334406008201 phosphorylation site [posttranslational modification] 334406008202 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406008203 ATP binding site [chemical binding]; other site 334406008204 Mg2+ binding site [ion binding]; other site 334406008205 G-X-G motif; other site 334406008206 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406008207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406008208 active site 334406008209 phosphorylation site [posttranslational modification] 334406008210 intermolecular recognition site; other site 334406008211 dimerization interface [polypeptide binding]; other site 334406008212 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406008213 DNA binding site [nucleotide binding] 334406008214 Predicted membrane protein [Function unknown]; Region: COG2364 334406008215 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406008216 Transcriptional regulators [Transcription]; Region: MarR; COG1846 334406008217 MarR family; Region: MarR; pfam01047 334406008218 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 334406008219 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406008220 Coenzyme A binding pocket [chemical binding]; other site 334406008221 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 334406008222 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334406008223 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406008224 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 334406008225 F0F1 ATP synthase subunit alpha; Validated; Region: PRK06763 334406008226 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406008227 binding surface 334406008228 TPR motif; other site 334406008229 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334406008230 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334406008231 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406008232 TPR motif; other site 334406008233 binding surface 334406008234 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 334406008235 putative dimer interface [polypeptide binding]; other site 334406008236 catalytic triad [active] 334406008237 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 334406008238 Uncharacterized conserved protein [Function unknown]; Region: COG4198 334406008239 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 334406008240 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 334406008241 glyoxylate reductase; Reviewed; Region: PRK13243 334406008242 putative ligand binding site [chemical binding]; other site 334406008243 putative NAD binding site [chemical binding]; other site 334406008244 putative catalytic site [active] 334406008245 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 334406008246 L-serine binding site [chemical binding]; other site 334406008247 ACT domain interface; other site 334406008248 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 334406008249 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334406008250 catalytic residue [active] 334406008251 Uncharacterized conserved protein [Function unknown]; Region: COG2155 334406008252 Cupin domain; Region: Cupin_2; cl17218 334406008253 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 334406008254 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334406008255 Penicillin amidase; Region: Penicil_amidase; pfam01804 334406008256 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 334406008257 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 334406008258 active site 334406008259 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 334406008260 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 334406008261 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 334406008262 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 334406008263 amidase catalytic site [active] 334406008264 Zn binding residues [ion binding]; other site 334406008265 substrate binding site [chemical binding]; other site 334406008266 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406008267 S-layer homology domain; Region: SLH; pfam00395 334406008268 S-layer homology domain; Region: SLH; pfam00395 334406008269 S-layer homology domain; Region: SLH; pfam00395 334406008270 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 334406008271 A new structural DNA glycosylase; Region: AlkD_like; cd06561 334406008272 active site 334406008273 Protein of unknown function (DUF3895); Region: DUF3895; pfam13034 334406008274 S-layer homology domain; Region: SLH; pfam00395 334406008275 S-layer homology domain; Region: SLH; pfam00395 334406008276 S-layer homology domain; Region: SLH; pfam00395 334406008277 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_13; cd08354 334406008278 putative metal binding site [ion binding]; other site 334406008279 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406008280 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 334406008281 NETI protein; Region: NETI; pfam14044 334406008282 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406008283 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406008284 putative substrate translocation pore; other site 334406008285 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 334406008286 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 334406008287 TAP-like protein; Region: Abhydrolase_4; pfam08386 334406008288 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406008289 MarR family; Region: MarR_2; pfam12802 334406008290 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406008291 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406008292 putative substrate translocation pore; other site 334406008293 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334406008294 Beta-lactamase; Region: Beta-lactamase; pfam00144 334406008295 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 334406008296 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 334406008297 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334406008298 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406008299 Walker A/P-loop; other site 334406008300 ATP binding site [chemical binding]; other site 334406008301 Q-loop/lid; other site 334406008302 ABC transporter signature motif; other site 334406008303 Walker B; other site 334406008304 D-loop; other site 334406008305 H-loop/switch region; other site 334406008306 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 334406008307 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406008308 putative DNA binding site [nucleotide binding]; other site 334406008309 putative Zn2+ binding site [ion binding]; other site 334406008310 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 334406008311 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406008312 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406008313 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 334406008314 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 334406008315 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 334406008316 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 334406008317 SWIM zinc finger; Region: SWIM; pfam04434 334406008318 YwiC-like protein; Region: YwiC; pfam14256 334406008319 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 334406008320 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334406008321 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334406008322 Walker A/P-loop; other site 334406008323 ATP binding site [chemical binding]; other site 334406008324 Q-loop/lid; other site 334406008325 ABC transporter signature motif; other site 334406008326 Walker B; other site 334406008327 D-loop; other site 334406008328 H-loop/switch region; other site 334406008329 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334406008330 Second domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain2; cd03226 334406008331 Walker A/P-loop; other site 334406008332 ATP binding site [chemical binding]; other site 334406008333 Q-loop/lid; other site 334406008334 ABC transporter signature motif; other site 334406008335 Walker B; other site 334406008336 D-loop; other site 334406008337 H-loop/switch region; other site 334406008338 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 334406008339 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 334406008340 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 334406008341 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 334406008342 Predicted membrane protein [Function unknown]; Region: COG1288 334406008343 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 334406008344 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; pfam10020 334406008345 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 334406008346 DNA binding residues [nucleotide binding] 334406008347 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 334406008348 dimer interface [polypeptide binding]; other site 334406008349 Protein of unknown function (DUF2910); Region: DUF2910; pfam11139 334406008350 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 334406008351 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 334406008352 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406008353 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406008354 non-specific DNA binding site [nucleotide binding]; other site 334406008355 salt bridge; other site 334406008356 sequence-specific DNA binding site [nucleotide binding]; other site 334406008357 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 334406008358 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 334406008359 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 334406008360 putative active site [active] 334406008361 putative NTP binding site [chemical binding]; other site 334406008362 putative nucleic acid binding site [nucleotide binding]; other site 334406008363 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 334406008364 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 334406008365 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 334406008366 putative deacylase active site [active] 334406008367 histidyl-tRNA synthetase; Provisional; Region: PRK12420 334406008368 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 334406008369 dimer interface [polypeptide binding]; other site 334406008370 motif 1; other site 334406008371 active site 334406008372 motif 2; other site 334406008373 motif 3; other site 334406008374 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 334406008375 anticodon binding site; other site 334406008376 Predicted transcriptional regulators [Transcription]; Region: COG1733 334406008377 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 334406008378 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 334406008379 dimer interface [polypeptide binding]; other site 334406008380 FMN binding site [chemical binding]; other site 334406008381 pyruvate kinase; Validated; Region: PRK06739 334406008382 active site 334406008383 domain interfaces; other site 334406008384 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12748 334406008385 classical (c) SDRs; Region: SDR_c; cd05233 334406008386 NAD(P) binding site [chemical binding]; other site 334406008387 active site 334406008388 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 334406008389 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334406008390 Walker A/P-loop; other site 334406008391 ATP binding site [chemical binding]; other site 334406008392 Q-loop/lid; other site 334406008393 ABC transporter signature motif; other site 334406008394 Walker B; other site 334406008395 D-loop; other site 334406008396 H-loop/switch region; other site 334406008397 Protein of unknown function (DUF3796); Region: DUF3796; pfam12676 334406008398 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406008399 non-specific DNA binding site [nucleotide binding]; other site 334406008400 salt bridge; other site 334406008401 sequence-specific DNA binding site [nucleotide binding]; other site 334406008402 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 334406008403 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406008404 motif II; other site 334406008405 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 334406008406 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 334406008407 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406008408 Coenzyme A binding pocket [chemical binding]; other site 334406008409 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 334406008410 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 334406008411 nudix motif; other site 334406008412 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_3; cd07241 334406008413 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406008414 putative metal binding site [ion binding]; other site 334406008415 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 334406008416 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 334406008417 maltose O-acetyltransferase; Provisional; Region: PRK10092 334406008418 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 334406008419 active site 334406008420 substrate binding site [chemical binding]; other site 334406008421 trimer interface [polypeptide binding]; other site 334406008422 CoA binding site [chemical binding]; other site 334406008423 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 334406008424 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 334406008425 active site 334406008426 HIGH motif; other site 334406008427 dimer interface [polypeptide binding]; other site 334406008428 KMSKS motif; other site 334406008429 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 334406008430 Domain of unknown function DUF20; Region: UPF0118; pfam01594 334406008431 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406008432 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 334406008433 Coenzyme A binding pocket [chemical binding]; other site 334406008434 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 334406008435 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406008436 S-adenosylmethionine binding site [chemical binding]; other site 334406008437 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 334406008438 CGNR zinc finger; Region: zf-CGNR; pfam11706 334406008439 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406008440 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406008441 putative substrate translocation pore; other site 334406008442 conjugal transfer protein TrbH; Provisional; Region: PRK13835 334406008443 Protein of unknown function (DUF3923); Region: DUF3923; pfam13061 334406008444 hypothetical protein; Provisional; Region: PRK04164 334406008445 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 334406008446 ATP synthase I chain; Region: ATP_synt_I; cl09170 334406008447 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 334406008448 Domain of unknown function DUF21; Region: DUF21; pfam01595 334406008449 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 334406008450 Transporter associated domain; Region: CorC_HlyC; smart01091 334406008451 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg4; cd04779 334406008452 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 334406008453 DNA binding residues [nucleotide binding] 334406008454 putative dimer interface [polypeptide binding]; other site 334406008455 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 334406008456 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 334406008457 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 334406008458 substrate binding site; other site 334406008459 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 334406008460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334406008461 NAD(P) binding site [chemical binding]; other site 334406008462 active site 334406008463 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 334406008464 Methyltransferase domain; Region: Methyltransf_23; pfam13489 334406008465 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406008466 S-adenosylmethionine binding site [chemical binding]; other site 334406008467 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 334406008468 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 334406008469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334406008470 NAD(P) binding site [chemical binding]; other site 334406008471 active site 334406008472 Variant SH3 domain; Region: SH3_2; pfam07653 334406008473 peptide ligand binding site [polypeptide binding]; other site 334406008474 Src Homology 3 domain superfamily; Region: SH3; cl17036 334406008475 EamA-like transporter family; Region: EamA; pfam00892 334406008476 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 334406008477 EamA-like transporter family; Region: EamA; pfam00892 334406008478 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 334406008479 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 334406008480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 334406008481 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 334406008482 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 334406008483 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 334406008484 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 334406008485 N- and C-terminal domain interface [polypeptide binding]; other site 334406008486 active site 334406008487 catalytic site [active] 334406008488 metal binding site [ion binding]; metal-binding site 334406008489 carbohydrate binding site [chemical binding]; other site 334406008490 ATP binding site [chemical binding]; other site 334406008491 GntP family permease; Region: GntP_permease; pfam02447 334406008492 fructuronate transporter; Provisional; Region: PRK10034; cl15264 334406008493 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 334406008494 active site 334406008495 intersubunit interactions; other site 334406008496 catalytic residue [active] 334406008497 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 334406008498 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 334406008499 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 334406008500 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 334406008501 TPP-binding site [chemical binding]; other site 334406008502 dimer interface [polypeptide binding]; other site 334406008503 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 334406008504 PYR/PP interface [polypeptide binding]; other site 334406008505 dimer interface [polypeptide binding]; other site 334406008506 TPP binding site [chemical binding]; other site 334406008507 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334406008508 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 334406008509 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 334406008510 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 334406008511 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 334406008512 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 334406008513 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 334406008514 putative NAD(P) binding site [chemical binding]; other site 334406008515 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 334406008516 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 334406008517 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 334406008518 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 334406008519 putative NAD(P) binding site [chemical binding]; other site 334406008520 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 334406008521 classical (c) SDRs; Region: SDR_c; cd05233 334406008522 NAD(P) binding site [chemical binding]; other site 334406008523 active site 334406008524 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 334406008525 dimer interface [polypeptide binding]; other site 334406008526 FMN binding site [chemical binding]; other site 334406008527 BNR repeat-like domain; Region: BNR_2; pfam13088 334406008528 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 334406008529 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334406008530 active site 334406008531 catalytic tetrad [active] 334406008532 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 334406008533 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406008534 putative substrate translocation pore; other site 334406008535 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 334406008536 active site 1 [active] 334406008537 dimer interface [polypeptide binding]; other site 334406008538 hexamer interface [polypeptide binding]; other site 334406008539 active site 2 [active] 334406008540 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 334406008541 hexamer interface [polypeptide binding]; other site 334406008542 active site 2 [active] 334406008543 hypothetical protein; Provisional; Region: PRK02487 334406008544 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 334406008545 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 334406008546 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 334406008547 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 334406008548 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 334406008549 putative active site [active] 334406008550 putative NTP binding site [chemical binding]; other site 334406008551 putative nucleic acid binding site [nucleotide binding]; other site 334406008552 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 334406008553 IDEAL domain; Region: IDEAL; pfam08858 334406008554 Transcriptional regulator; Region: Rrf2; pfam02082 334406008555 Rrf2 family protein; Region: rrf2_super; TIGR00738 334406008556 chaperonin_like superfamily. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 334406008557 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 334406008558 ArsC family; Region: ArsC; pfam03960 334406008559 putative catalytic residues [active] 334406008560 thiol/disulfide switch; other site 334406008561 Predicted transcriptional regulators [Transcription]; Region: COG1733 334406008562 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406008563 dimerization interface [polypeptide binding]; other site 334406008564 putative DNA binding site [nucleotide binding]; other site 334406008565 putative Zn2+ binding site [ion binding]; other site 334406008566 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 334406008567 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406008568 DNA-binding site [nucleotide binding]; DNA binding site 334406008569 UTRA domain; Region: UTRA; pfam07702 334406008570 putative oxidoreductase; Provisional; Region: PRK10206 334406008571 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 334406008572 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 334406008573 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 334406008574 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 334406008575 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406008576 S-adenosylmethionine binding site [chemical binding]; other site 334406008577 Predicted transcriptional regulators [Transcription]; Region: COG1733 334406008578 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 334406008579 Predicted transcriptional regulators [Transcription]; Region: COG1733 334406008580 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406008581 dimerization interface [polypeptide binding]; other site 334406008582 putative DNA binding site [nucleotide binding]; other site 334406008583 putative Zn2+ binding site [ion binding]; other site 334406008584 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334406008585 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 334406008586 active site 334406008587 catalytic tetrad [active] 334406008588 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 334406008589 putative hydrophobic ligand binding site [chemical binding]; other site 334406008590 protein interface [polypeptide binding]; other site 334406008591 gate; other site 334406008592 Isoamyl-acetate hydrolyzing esterase-like proteins. SGNH_hydrolase subfamily similar to the Saccharomyces cerevisiae IAH1. IAH1 may be the major esterase that hydrolyses isoamyl acetate in sake mash. The SGNH-family of hydrolases is a diverse family of...; Region: Isoamyl_acetate_hydrolase_like; cd01838 334406008593 catalytic triad [active] 334406008594 oxyanion hole [active] 334406008595 active site 334406008596 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406008597 Phosphotransferase enzyme family; Region: APH; pfam01636 334406008598 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 334406008599 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 334406008600 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 334406008601 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 334406008602 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406008603 Coenzyme A binding pocket [chemical binding]; other site 334406008604 C factor cell-cell signaling protein; Provisional; Region: PRK09009 334406008605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334406008606 NAD(P) binding site [chemical binding]; other site 334406008607 active site 334406008608 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334406008609 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406008610 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406008611 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 334406008612 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 334406008613 acyl-activating enzyme (AAE) consensus motif; other site 334406008614 AMP binding site [chemical binding]; other site 334406008615 active site 334406008616 CoA binding site [chemical binding]; other site 334406008617 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 334406008618 Predicted transcriptional regulators [Transcription]; Region: COG1733 334406008619 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406008620 dimerization interface [polypeptide binding]; other site 334406008621 putative DNA binding site [nucleotide binding]; other site 334406008622 putative Zn2+ binding site [ion binding]; other site 334406008623 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406008624 dimerization interface [polypeptide binding]; other site 334406008625 putative DNA binding site [nucleotide binding]; other site 334406008626 putative Zn2+ binding site [ion binding]; other site 334406008627 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 334406008628 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 334406008629 Catalytic NodB homology domain of uncharacterized bacterial glycosyl transferase, group 2-like family proteins; Region: CE4_GT2-like; cd10962 334406008630 NodB motif; other site 334406008631 putative active site [active] 334406008632 putative catalytic site [active] 334406008633 putative Zn binding site [ion binding]; other site 334406008634 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 334406008635 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 334406008636 DXD motif; other site 334406008637 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 334406008638 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 334406008639 active site 334406008640 hypothetical protein; Provisional; Region: PRK12856 334406008641 CAAX protease self-immunity; Region: Abi; pfam02517 334406008642 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406008643 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406008644 Protein of unknown function (DUF3963); Region: DUF3963; pfam13124 334406008645 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 334406008646 Predicted transcriptional regulator [Transcription]; Region: COG2378 334406008647 HTH domain; Region: HTH_11; pfam08279 334406008648 WYL domain; Region: WYL; pfam13280 334406008649 ABC-2 type transporter; Region: ABC2_membrane; cl17235 334406008650 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 334406008651 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406008652 Walker A/P-loop; other site 334406008653 ATP binding site [chemical binding]; other site 334406008654 Q-loop/lid; other site 334406008655 ABC transporter signature motif; other site 334406008656 Walker B; other site 334406008657 D-loop; other site 334406008658 H-loop/switch region; other site 334406008659 Protein of unknown function (DUF1048); Region: DUF1048; pfam06304 334406008660 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406008661 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 334406008662 hydroxylamine reductase; Provisional; Region: PRK12310 334406008663 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 334406008664 ACS interaction site; other site 334406008665 CODH interaction site; other site 334406008666 metal cluster binding site [ion binding]; other site 334406008667 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 334406008668 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406008669 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 334406008670 metal binding site [ion binding]; metal-binding site 334406008671 Domain of unknown function (DUF3784); Region: DUF3784; pfam12650 334406008672 hypothetical protein; Provisional; Region: PRK06771 334406008673 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 334406008674 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 334406008675 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 334406008676 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334406008677 active site 334406008678 metal binding site [ion binding]; metal-binding site 334406008679 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 334406008680 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 334406008681 ligand binding site [chemical binding]; other site 334406008682 flexible hinge region; other site 334406008683 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 334406008684 Protein of unknown function, DUF606; Region: DUF606; pfam04657 334406008685 Protein of unknown function, DUF606; Region: DUF606; pfam04657 334406008686 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406008687 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 334406008688 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 334406008689 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 334406008690 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406008691 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 334406008692 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 334406008693 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 334406008694 putative NAD(P) binding site [chemical binding]; other site 334406008695 dimer interface [polypeptide binding]; other site 334406008696 putative transport protein YifK; Provisional; Region: PRK10746 334406008697 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406008698 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 334406008699 putative substrate translocation pore; other site 334406008700 Haemolysin XhlA; Region: XhlA; pfam10779 334406008701 bacillithiol biosynthesis deacetylase BshB2; Region: thiol_BshB2; TIGR04000 334406008702 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 334406008703 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 334406008704 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 334406008705 transmembrane helices; other site 334406008706 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 334406008707 putative ligand binding residues [chemical binding]; other site 334406008708 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 334406008709 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 334406008710 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406008711 ABC-ATPase subunit interface; other site 334406008712 dimer interface [polypeptide binding]; other site 334406008713 putative PBP binding regions; other site 334406008714 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 334406008715 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406008716 ABC-ATPase subunit interface; other site 334406008717 dimer interface [polypeptide binding]; other site 334406008718 putative PBP binding regions; other site 334406008719 Protein of unknown function (DUF817); Region: DUF817; pfam05675 334406008720 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 334406008721 DinB superfamily; Region: DinB_2; pfam12867 334406008722 DinB family; Region: DinB; cl17821 334406008723 Protein of unknown function (DUF2690); Region: DUF2690; pfam10901 334406008724 Protein of unknown function (DUF2690); Region: DUF2690; pfam10901 334406008725 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334406008726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334406008727 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 334406008728 dimerization interface [polypeptide binding]; other site 334406008729 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 334406008730 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 334406008731 NADP binding site [chemical binding]; other site 334406008732 dimer interface [polypeptide binding]; other site 334406008733 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 334406008734 catalytic core [active] 334406008735 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 334406008736 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406008737 Coenzyme A binding pocket [chemical binding]; other site 334406008738 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 334406008739 MutS domain III; Region: MutS_III; pfam05192 334406008740 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406008741 Walker A/P-loop; other site 334406008742 ATP binding site [chemical binding]; other site 334406008743 Q-loop/lid; other site 334406008744 ABC transporter signature motif; other site 334406008745 Walker B; other site 334406008746 D-loop; other site 334406008747 H-loop/switch region; other site 334406008748 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 334406008749 oligoendopeptidase F; Region: pepF; TIGR00181 334406008750 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 334406008751 active site 334406008752 Zn binding site [ion binding]; other site 334406008753 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334406008754 Beta-lactamase; Region: Beta-lactamase; pfam00144 334406008755 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406008756 putative substrate translocation pore; other site 334406008757 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406008758 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334406008759 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334406008760 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 334406008761 putative dimerization interface [polypeptide binding]; other site 334406008762 Protein of unknown function (DUF3916); Region: DUF3916; pfam13079 334406008763 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 334406008764 putative active site [active] 334406008765 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 334406008766 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 334406008767 active site 334406008768 catalytic site [active] 334406008769 metal binding site [ion binding]; metal-binding site 334406008770 FAD binding domain; Region: FAD_binding_3; pfam01494 334406008771 hypothetical protein; Provisional; Region: PRK07236 334406008772 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 334406008773 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406008774 dimerization interface [polypeptide binding]; other site 334406008775 putative DNA binding site [nucleotide binding]; other site 334406008776 putative Zn2+ binding site [ion binding]; other site 334406008777 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 334406008778 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 334406008779 putative NAD(P) binding site [chemical binding]; other site 334406008780 Uncharacterized conserved protein [Function unknown]; Region: COG0397 334406008781 hypothetical protein; Validated; Region: PRK00029 334406008782 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334406008783 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406008784 TPR motif; other site 334406008785 binding surface 334406008786 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 334406008787 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 334406008788 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 334406008789 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 334406008790 Sodium Bile acid symporter family; Region: SBF; cl17470 334406008791 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 334406008792 FAD binding domain; Region: FAD_binding_4; pfam01565 334406008793 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 334406008794 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406008795 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 334406008796 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 334406008797 FOG: PKD repeat [General function prediction only]; Region: COG3291 334406008798 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 334406008799 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 334406008800 MgtC family; Region: MgtC; pfam02308 334406008801 Predicted acetyltransferase [General function prediction only]; Region: COG3981 334406008802 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406008803 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 334406008804 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 334406008805 putative metal binding site [ion binding]; other site 334406008806 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 334406008807 active site 334406008808 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 334406008809 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334406008810 substrate binding pocket [chemical binding]; other site 334406008811 membrane-bound complex binding site; other site 334406008812 hinge residues; other site 334406008813 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334406008814 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 334406008815 Walker A/P-loop; other site 334406008816 ATP binding site [chemical binding]; other site 334406008817 Q-loop/lid; other site 334406008818 ABC transporter signature motif; other site 334406008819 Walker B; other site 334406008820 D-loop; other site 334406008821 H-loop/switch region; other site 334406008822 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 334406008823 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406008824 dimer interface [polypeptide binding]; other site 334406008825 conserved gate region; other site 334406008826 putative PBP binding loops; other site 334406008827 ABC-ATPase subunit interface; other site 334406008828 VanW like protein; Region: VanW; pfam04294 334406008829 Sensor protein DegS; Region: DegS; pfam05384 334406008830 Protein of unknown function (DUF3900); Region: DUF3900; pfam13039 334406008831 Domain of unknown function (DUF3898); Region: DUF3898; pfam13037 334406008832 exonuclease; Provisional; Region: PRK06722 334406008833 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 334406008834 active site 334406008835 catalytic site [active] 334406008836 substrate binding site [chemical binding]; other site 334406008837 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 334406008838 DNA-binding site [nucleotide binding]; DNA binding site 334406008839 RNA-binding motif; other site 334406008840 flavodoxin; Provisional; Region: PRK06703 334406008841 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 334406008842 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 334406008843 nudix motif; other site 334406008844 ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_PF0470_like; cd06555 334406008845 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 334406008846 trimer interface [polypeptide binding]; other site 334406008847 active site 334406008848 substrate binding site [chemical binding]; other site 334406008849 CoA binding site [chemical binding]; other site 334406008850 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406008851 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406008852 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406008853 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406008854 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406008855 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406008856 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406008857 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406008858 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406008859 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406008860 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406008861 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406008862 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406008863 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406008864 short chain dehydrogenase; Provisional; Region: PRK06924 334406008865 sepiapterin reductase (SPR)-like, classical (c) SDRs; Region: SPR-like_SDR_c; cd05367 334406008866 NADP binding site [chemical binding]; other site 334406008867 homodimer interface [polypeptide binding]; other site 334406008868 active site 334406008869 Predicted acetyltransferase [General function prediction only]; Region: COG3393 334406008870 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334406008871 argininosuccinate lyase; Provisional; Region: PRK06705 334406008872 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 334406008873 active sites [active] 334406008874 tetramer interface [polypeptide binding]; other site 334406008875 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334406008876 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334406008877 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cd00455 334406008878 active site 334406008879 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 334406008880 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 334406008881 Na binding site [ion binding]; other site 334406008882 Protein of unknown function (DUF997); Region: DUF997; pfam06196 334406008883 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 334406008884 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 334406008885 NAD(P) binding site [chemical binding]; other site 334406008886 DinB family; Region: DinB; cl17821 334406008887 DinB superfamily; Region: DinB_2; pfam12867 334406008888 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 334406008889 active site 334406008890 catalytic residues [active] 334406008891 DNA binding site [nucleotide binding] 334406008892 Int/Topo IB signature motif; other site 334406008893 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 334406008894 active site 334406008895 DNA binding site [nucleotide binding] 334406008896 Int/Topo IB signature motif; other site 334406008897 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 334406008898 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 334406008899 NAD(P) binding site [chemical binding]; other site 334406008900 homotetramer interface [polypeptide binding]; other site 334406008901 homodimer interface [polypeptide binding]; other site 334406008902 active site 334406008903 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 334406008904 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 334406008905 Divergent PAP2 family; Region: DUF212; pfam02681 334406008906 Predicted permeases [General function prediction only]; Region: RarD; COG2962 334406008907 EamA-like transporter family; Region: EamA; pfam00892 334406008908 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 334406008909 Domain of unknown function DUF59; Region: DUF59; pfam01883 334406008910 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 334406008911 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 334406008912 Walker A motif; other site 334406008913 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 334406008914 MoaE interaction surface [polypeptide binding]; other site 334406008915 MoeB interaction surface [polypeptide binding]; other site 334406008916 thiocarboxylated glycine; other site 334406008917 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 334406008918 MoaE homodimer interface [polypeptide binding]; other site 334406008919 MoaD interaction [polypeptide binding]; other site 334406008920 active site residues [active] 334406008921 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 334406008922 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 334406008923 dimer interface [polypeptide binding]; other site 334406008924 putative functional site; other site 334406008925 putative MPT binding site; other site 334406008926 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional; Region: PRK12475 334406008927 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 334406008928 ATP binding site [chemical binding]; other site 334406008929 substrate interface [chemical binding]; other site 334406008930 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 334406008931 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 334406008932 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406008933 FeS/SAM binding site; other site 334406008934 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 334406008935 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 334406008936 Uncharacterized conserved protein [Function unknown]; Region: COG5609 334406008937 Uncharacterized conserved protein [Function unknown]; Region: COG2427 334406008938 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 334406008939 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 334406008940 catalytic loop [active] 334406008941 iron binding site [ion binding]; other site 334406008942 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 334406008943 4Fe-4S binding domain; Region: Fer4; pfam00037 334406008944 4Fe-4S binding domain; Region: Fer4; pfam00037 334406008945 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 334406008946 [4Fe-4S] binding site [ion binding]; other site 334406008947 molybdopterin cofactor binding site; other site 334406008948 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 334406008949 molybdopterin cofactor binding site; other site 334406008950 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 334406008951 spore germination protein (amino acid permease); Region: 2A0309; TIGR00912 334406008952 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 334406008953 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 334406008954 Tubulin like; Region: Tubulin_2; pfam13809 334406008955 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 334406008956 metal ion-dependent adhesion site (MIDAS); other site 334406008957 Methyltransferase domain; Region: Methyltransf_31; pfam13847 334406008958 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406008959 S-adenosylmethionine binding site [chemical binding]; other site 334406008960 O-methyltransferase; Region: Methyltransf_2; pfam00891 334406008961 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 334406008962 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 334406008963 peptide binding site [polypeptide binding]; other site 334406008964 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 334406008965 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 334406008966 peptide binding site [polypeptide binding]; other site 334406008967 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 334406008968 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 334406008969 peptide binding site [polypeptide binding]; other site 334406008970 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 334406008971 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 334406008972 Transcriptional regulator [Transcription]; Region: LytR; COG1316 334406008973 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 334406008974 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406008975 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406008976 DNA binding residues [nucleotide binding] 334406008977 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 334406008978 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 334406008979 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334406008980 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334406008981 Walker A/P-loop; other site 334406008982 ATP binding site [chemical binding]; other site 334406008983 Q-loop/lid; other site 334406008984 ABC transporter signature motif; other site 334406008985 Walker B; other site 334406008986 D-loop; other site 334406008987 H-loop/switch region; other site 334406008988 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406008989 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406008990 putative oxidoreductase; Provisional; Region: PRK11579 334406008991 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 334406008992 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 334406008993 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 334406008994 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 334406008995 CAP-like domain; other site 334406008996 active site 334406008997 primary dimer interface [polypeptide binding]; other site 334406008998 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334406008999 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334406009000 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334406009001 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334406009002 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 334406009003 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406009004 ATP binding site [chemical binding]; other site 334406009005 Mg2+ binding site [ion binding]; other site 334406009006 G-X-G motif; other site 334406009007 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 334406009008 anchoring element; other site 334406009009 dimer interface [polypeptide binding]; other site 334406009010 ATP binding site [chemical binding]; other site 334406009011 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 334406009012 active site 334406009013 putative metal-binding site [ion binding]; other site 334406009014 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 334406009015 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 334406009016 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 334406009017 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 334406009018 protein binding site [polypeptide binding]; other site 334406009019 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406009020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406009021 active site 334406009022 phosphorylation site [posttranslational modification] 334406009023 intermolecular recognition site; other site 334406009024 dimerization interface [polypeptide binding]; other site 334406009025 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406009026 DNA binding site [nucleotide binding] 334406009027 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 334406009028 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406009029 FeS/SAM binding site; other site 334406009030 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK14704 334406009031 Class III ribonucleotide reductase; Region: RNR_III; cd01675 334406009032 effector binding site; other site 334406009033 active site 334406009034 Zn binding site [ion binding]; other site 334406009035 glycine loop; other site 334406009036 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 334406009037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4841 334406009038 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 334406009039 active site 334406009040 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 334406009041 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334406009042 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334406009043 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 334406009044 active site 334406009045 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 334406009046 acid-soluble spore protein N; Provisional; Region: sspN; PRK09398 334406009047 Protein of unknown function (DUF3901); Region: DUF3901; pfam13040 334406009048 DNA polymerase III subunit epsilon; Validated; Region: PRK06807 334406009049 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 334406009050 active site 334406009051 catalytic site [active] 334406009052 substrate binding site [chemical binding]; other site 334406009053 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 334406009054 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 334406009055 catalytic residues [active] 334406009056 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334406009057 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334406009058 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334406009059 Walker A/P-loop; other site 334406009060 ATP binding site [chemical binding]; other site 334406009061 ABC transporter signature motif; other site 334406009062 Walker B; other site 334406009063 D-loop; other site 334406009064 H-loop/switch region; other site 334406009065 aconitate hydratase; Validated; Region: PRK09277 334406009066 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 334406009067 substrate binding site [chemical binding]; other site 334406009068 ligand binding site [chemical binding]; other site 334406009069 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 334406009070 substrate binding site [chemical binding]; other site 334406009071 acid-soluble spore protein O; Provisional; Region: sspO; PRK02984 334406009072 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 334406009073 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 334406009074 NodB motif; other site 334406009075 active site 334406009076 catalytic site [active] 334406009077 metal binding site [ion binding]; metal-binding site 334406009078 Small acid-soluble spore protein P family; Region: SspP; cl12105 334406009079 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 334406009080 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 334406009081 putative dimer interface [polypeptide binding]; other site 334406009082 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 334406009083 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 334406009084 active site 334406009085 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 334406009086 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 334406009087 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 334406009088 nudix motif; other site 334406009089 SAP domain; Region: SAP; pfam02037 334406009090 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406009091 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406009092 non-specific DNA binding site [nucleotide binding]; other site 334406009093 salt bridge; other site 334406009094 sequence-specific DNA binding site [nucleotide binding]; other site 334406009095 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334406009096 acetyl-CoA acetyltransferase; Provisional; Region: PRK06690 334406009097 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 334406009098 dimer interface [polypeptide binding]; other site 334406009099 active site 334406009100 acyl-CoA synthetase; Validated; Region: PRK07638 334406009101 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 334406009102 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 334406009103 acyl-activating enzyme (AAE) consensus motif; other site 334406009104 acyl-activating enzyme (AAE) consensus motif; other site 334406009105 AMP binding site [chemical binding]; other site 334406009106 active site 334406009107 CoA binding site [chemical binding]; other site 334406009108 BioY family; Region: BioY; pfam02632 334406009109 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 334406009110 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 334406009111 dimer interface [polypeptide binding]; other site 334406009112 acyl-activating enzyme (AAE) consensus motif; other site 334406009113 putative active site [active] 334406009114 AMP binding site [chemical binding]; other site 334406009115 putative CoA binding site [chemical binding]; other site 334406009116 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 334406009117 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334406009118 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334406009119 Walker A/P-loop; other site 334406009120 ATP binding site [chemical binding]; other site 334406009121 Q-loop/lid; other site 334406009122 ABC transporter signature motif; other site 334406009123 Walker B; other site 334406009124 D-loop; other site 334406009125 H-loop/switch region; other site 334406009126 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406009127 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406009128 non-specific DNA binding site [nucleotide binding]; other site 334406009129 salt bridge; other site 334406009130 sequence-specific DNA binding site [nucleotide binding]; other site 334406009131 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406009132 Coenzyme A binding pocket [chemical binding]; other site 334406009133 S-layer homology domain; Region: SLH; pfam00395 334406009134 S-layer homology domain; Region: SLH; pfam00395 334406009135 S-layer homology domain; Region: SLH; pfam00395 334406009136 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 334406009137 active site 334406009138 catalytic motif [active] 334406009139 Zn binding site [ion binding]; other site 334406009140 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 334406009141 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 334406009142 amidase catalytic site [active] 334406009143 Zn binding residues [ion binding]; other site 334406009144 substrate binding site [chemical binding]; other site 334406009145 active site 334406009146 Protein phosphatase 2C; Region: PP2C_2; pfam13672 334406009147 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334406009148 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 334406009149 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406009150 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 334406009151 dimer interface [polypeptide binding]; other site 334406009152 putative metal binding site [ion binding]; other site 334406009153 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406009154 PAS domain; Region: PAS_9; pfam13426 334406009155 putative active site [active] 334406009156 heme pocket [chemical binding]; other site 334406009157 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 334406009158 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406009159 putative active site [active] 334406009160 heme pocket [chemical binding]; other site 334406009161 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406009162 dimer interface [polypeptide binding]; other site 334406009163 phosphorylation site [posttranslational modification] 334406009164 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406009165 ATP binding site [chemical binding]; other site 334406009166 Mg2+ binding site [ion binding]; other site 334406009167 G-X-G motif; other site 334406009168 Predicted esterase [General function prediction only]; Region: COG0400 334406009169 putative hydrolase; Provisional; Region: PRK11460 334406009170 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 334406009171 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406009172 Zn binding site [ion binding]; other site 334406009173 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 334406009174 Zn binding site [ion binding]; other site 334406009175 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 334406009176 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 334406009177 Na binding site [ion binding]; other site 334406009178 Protein of unknown function (DUF1453); Region: DUF1453; pfam07301 334406009179 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 334406009180 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 334406009181 active site 334406009182 FMN binding site [chemical binding]; other site 334406009183 substrate binding site [chemical binding]; other site 334406009184 3Fe-4S cluster binding site [ion binding]; other site 334406009185 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 334406009186 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 334406009187 FMN binding site [chemical binding]; other site 334406009188 active site 334406009189 substrate binding site [chemical binding]; other site 334406009190 catalytic residue [active] 334406009191 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 334406009192 agmatinase; Region: agmatinase; TIGR01230 334406009193 Agmatinase-like family; Region: Agmatinase-like; cd09990 334406009194 active site 334406009195 oligomer interface [polypeptide binding]; other site 334406009196 Mn binding site [ion binding]; other site 334406009197 imidazolonepropionase; Validated; Region: PRK09356 334406009198 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 334406009199 active site 334406009200 urocanate hydratase; Provisional; Region: PRK05414 334406009201 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 334406009202 active sites [active] 334406009203 tetramer interface [polypeptide binding]; other site 334406009204 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 334406009205 hexamer interface [polypeptide binding]; other site 334406009206 RNA binding site [nucleotide binding]; other site 334406009207 Histidine-zinc binding site [chemical binding]; other site 334406009208 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406009209 S-adenosylmethionine binding site [chemical binding]; other site 334406009210 DJ-1 family protein; Region: not_thiJ; TIGR01383 334406009211 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 334406009212 conserved cys residue [active] 334406009213 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 334406009214 AAA domain; Region: AAA_28; pfam13521 334406009215 active site 334406009216 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 334406009217 potential frameshift: common BLAST hit: gi|225865643|ref|YP_002751021.1| conserved repeat domain protein 334406009218 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406009219 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406009220 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406009221 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406009222 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406009223 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406009224 Domain of unknown function DUF11; Region: DUF11; cl17728 334406009225 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406009226 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406009227 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406009228 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406009229 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406009230 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406009231 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406009232 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406009233 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 334406009234 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 334406009235 putative active site [active] 334406009236 putative NTP binding site [chemical binding]; other site 334406009237 putative nucleic acid binding site [nucleotide binding]; other site 334406009238 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 334406009239 active site 334406009240 Protein of unknown function (DUF1453); Region: DUF1453; pfam07301 334406009241 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 334406009242 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 334406009243 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 334406009244 EamA-like transporter family; Region: EamA; pfam00892 334406009245 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 334406009246 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 334406009247 metal binding site [ion binding]; metal-binding site 334406009248 dimer interface [polypeptide binding]; other site 334406009249 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 334406009250 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 334406009251 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334406009252 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406009253 Walker A/P-loop; other site 334406009254 ATP binding site [chemical binding]; other site 334406009255 Q-loop/lid; other site 334406009256 ABC transporter signature motif; other site 334406009257 Walker B; other site 334406009258 D-loop; other site 334406009259 H-loop/switch region; other site 334406009260 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 334406009261 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334406009262 The C-terminal substrate binding domain of LysR-type trnascriptional regulator AlsR, which regulates acetoin formation under stationary phase growth conditions; contains the type 2 periplasmic binding fold; Region: PBP2_AlsR; cd08452 334406009263 putative dimerization interface [polypeptide binding]; other site 334406009264 putative substrate binding pocket [chemical binding]; other site 334406009265 holin-like protein; Validated; Region: PRK01658 334406009266 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 334406009267 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 334406009268 nudix motif; other site 334406009269 Domain of unknown function (DUF3903); Region: DUF3903; pfam13043 334406009270 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 334406009271 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 334406009272 amidase catalytic site [active] 334406009273 Zn binding residues [ion binding]; other site 334406009274 substrate binding site [chemical binding]; other site 334406009275 S-layer homology domain; Region: SLH; pfam00395 334406009276 S-layer homology domain; Region: SLH; pfam00395 334406009277 S-layer homology domain; Region: SLH; pfam00395 334406009278 Nuclease-related domain; Region: NERD; pfam08378 334406009279 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334406009280 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334406009281 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 334406009282 Walker A/P-loop; other site 334406009283 ATP binding site [chemical binding]; other site 334406009284 Q-loop/lid; other site 334406009285 ABC transporter signature motif; other site 334406009286 Walker B; other site 334406009287 D-loop; other site 334406009288 H-loop/switch region; other site 334406009289 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334406009290 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 334406009291 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406009292 Walker A/P-loop; other site 334406009293 ATP binding site [chemical binding]; other site 334406009294 Q-loop/lid; other site 334406009295 ABC transporter signature motif; other site 334406009296 Walker B; other site 334406009297 D-loop; other site 334406009298 H-loop/switch region; other site 334406009299 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 334406009300 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 334406009301 large terminase protein; Provisional; Region: 17; PHA02533 334406009302 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406009303 sequence-specific DNA binding site [nucleotide binding]; other site 334406009304 salt bridge; other site 334406009305 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 334406009306 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 334406009307 active site 334406009308 DNA binding site [nucleotide binding] 334406009309 Int/Topo IB signature motif; other site 334406009310 hypothetical protein; Provisional; Region: PRK01844 334406009311 Protein of unknown function (DUF2522); Region: DUF2522; pfam10747 334406009312 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 334406009313 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 334406009314 TPP-binding site [chemical binding]; other site 334406009315 dimer interface [polypeptide binding]; other site 334406009316 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 334406009317 PYR/PP interface [polypeptide binding]; other site 334406009318 dimer interface [polypeptide binding]; other site 334406009319 TPP binding site [chemical binding]; other site 334406009320 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334406009321 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 334406009322 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406009323 dimer interface [polypeptide binding]; other site 334406009324 conserved gate region; other site 334406009325 ABC-ATPase subunit interface; other site 334406009326 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 334406009327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406009328 dimer interface [polypeptide binding]; other site 334406009329 conserved gate region; other site 334406009330 ABC-ATPase subunit interface; other site 334406009331 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 334406009332 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 334406009333 Walker A/P-loop; other site 334406009334 ATP binding site [chemical binding]; other site 334406009335 Q-loop/lid; other site 334406009336 ABC transporter signature motif; other site 334406009337 Walker B; other site 334406009338 D-loop; other site 334406009339 H-loop/switch region; other site 334406009340 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 334406009341 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 334406009342 membrane-bound complex binding site; other site 334406009343 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 334406009344 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 334406009345 active site 334406009346 metal binding site [ion binding]; metal-binding site 334406009347 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 334406009348 hypothetical protein; Provisional; Region: PRK01546 334406009349 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 334406009350 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 334406009351 catalytic residues [active] 334406009352 catalytic nucleophile [active] 334406009353 LexA repressor; Validated; Region: PRK00215 334406009354 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406009355 putative DNA binding site [nucleotide binding]; other site 334406009356 putative Zn2+ binding site [ion binding]; other site 334406009357 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 334406009358 Catalytic site [active] 334406009359 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 334406009360 Uncharacterized conserved protein [Function unknown]; Region: COG3595 334406009361 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 334406009362 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 334406009363 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406009364 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 334406009365 glutamine synthetase, type I; Region: GlnA; TIGR00653 334406009366 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 334406009367 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 334406009368 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 334406009369 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 334406009370 DNA binding residues [nucleotide binding] 334406009371 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 334406009372 Aluminium resistance protein; Region: Alum_res; pfam06838 334406009373 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 334406009374 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 334406009375 HflX GTPase family; Region: HflX; cd01878 334406009376 G1 box; other site 334406009377 GTP/Mg2+ binding site [chemical binding]; other site 334406009378 Switch I region; other site 334406009379 G2 box; other site 334406009380 G3 box; other site 334406009381 Switch II region; other site 334406009382 G4 box; other site 334406009383 G5 box; other site 334406009384 Predicted membrane protein [Function unknown]; Region: COG2860 334406009385 UPF0126 domain; Region: UPF0126; pfam03458 334406009386 UPF0126 domain; Region: UPF0126; pfam03458 334406009387 stage V sporulation protein K; Region: spore_V_K; TIGR02881 334406009388 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406009389 Walker A motif; other site 334406009390 ATP binding site [chemical binding]; other site 334406009391 Walker B motif; other site 334406009392 arginine finger; other site 334406009393 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 334406009394 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 334406009395 active site 334406009396 catalytic residues [active] 334406009397 DNA binding site [nucleotide binding] 334406009398 Int/Topo IB signature motif; other site 334406009399 bacterial Hfq-like; Region: Hfq; cd01716 334406009400 hexamer interface [polypeptide binding]; other site 334406009401 Sm1 motif; other site 334406009402 RNA binding site [nucleotide binding]; other site 334406009403 Sm2 motif; other site 334406009404 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 334406009405 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 334406009406 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406009407 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406009408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 334406009409 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 334406009410 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 334406009411 active site 334406009412 phosphorylation site [posttranslational modification] 334406009413 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 334406009414 active site 334406009415 P-loop; other site 334406009416 phosphorylation site [posttranslational modification] 334406009417 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 334406009418 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 334406009419 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 334406009420 putative substrate binding site [chemical binding]; other site 334406009421 putative ATP binding site [chemical binding]; other site 334406009422 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 334406009423 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 334406009424 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 334406009425 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 334406009426 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 334406009427 dimer interface [polypeptide binding]; other site 334406009428 active site 334406009429 metal binding site [ion binding]; metal-binding site 334406009430 Predicted membrane protein [Function unknown]; Region: COG2322 334406009431 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 334406009432 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 334406009433 Glyco_18 domain; Region: Glyco_18; smart00636 334406009434 putative active site [active] 334406009435 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 334406009436 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334406009437 putative active site [active] 334406009438 putative metal binding site [ion binding]; other site 334406009439 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 334406009440 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 334406009441 IHF dimer interface [polypeptide binding]; other site 334406009442 IHF - DNA interface [nucleotide binding]; other site 334406009443 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 334406009444 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 334406009445 metal-binding site [ion binding] 334406009446 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 334406009447 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 334406009448 metal-binding site [ion binding] 334406009449 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334406009450 Soluble P-type ATPase [General function prediction only]; Region: COG4087 334406009451 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 334406009452 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 334406009453 metal-binding site [ion binding] 334406009454 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 334406009455 putative homodimer interface [polypeptide binding]; other site 334406009456 putative homotetramer interface [polypeptide binding]; other site 334406009457 putative allosteric switch controlling residues; other site 334406009458 putative metal binding site [ion binding]; other site 334406009459 putative homodimer-homodimer interface [polypeptide binding]; other site 334406009460 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 334406009461 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 334406009462 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 334406009463 Walker A/P-loop; other site 334406009464 ATP binding site [chemical binding]; other site 334406009465 Q-loop/lid; other site 334406009466 ABC transporter signature motif; other site 334406009467 Walker B; other site 334406009468 D-loop; other site 334406009469 H-loop/switch region; other site 334406009470 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 334406009471 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406009472 ABC-ATPase subunit interface; other site 334406009473 dimer interface [polypeptide binding]; other site 334406009474 putative PBP binding regions; other site 334406009475 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 334406009476 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406009477 ABC-ATPase subunit interface; other site 334406009478 dimer interface [polypeptide binding]; other site 334406009479 putative PBP binding regions; other site 334406009480 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 334406009481 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 334406009482 putative ligand binding residues [chemical binding]; other site 334406009483 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 334406009484 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 334406009485 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334406009486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334406009487 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 334406009488 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 334406009489 DNA binding site [nucleotide binding] 334406009490 active site 334406009491 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 334406009492 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 334406009493 endonuclease III; Region: ENDO3c; smart00478 334406009494 minor groove reading motif; other site 334406009495 helix-hairpin-helix signature motif; other site 334406009496 substrate binding pocket [chemical binding]; other site 334406009497 active site 334406009498 peptidase T; Region: peptidase-T; TIGR01882 334406009499 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 334406009500 metal binding site [ion binding]; metal-binding site 334406009501 dimer interface [polypeptide binding]; other site 334406009502 Predicted membrane protein [Function unknown]; Region: COG2364 334406009503 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406009504 hypothetical protein; Provisional; Region: PRK06764 334406009505 PAS domain S-box; Region: sensory_box; TIGR00229 334406009506 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406009507 putative active site [active] 334406009508 heme pocket [chemical binding]; other site 334406009509 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 334406009510 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 334406009511 metal binding site [ion binding]; metal-binding site 334406009512 active site 334406009513 I-site; other site 334406009514 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 334406009515 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 334406009516 Uncharacterized protein from bacillus cereus group; Region: YfmQ; pfam10787 334406009517 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 334406009518 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406009519 DNA-binding site [nucleotide binding]; DNA binding site 334406009520 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406009521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406009522 homodimer interface [polypeptide binding]; other site 334406009523 catalytic residue [active] 334406009524 Catalytic domain of prokaryotic and eukaryotic phosphoinositide-specific phospholipase C; Region: PI-PLCc; cd00137 334406009525 active site 334406009526 catalytic site [active] 334406009527 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334406009528 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 334406009529 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334406009530 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 334406009531 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 334406009532 Sulfatase; Region: Sulfatase; pfam00884 334406009533 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406009534 binding surface 334406009535 Tetratricopeptide repeat; Region: TPR_16; pfam13432 334406009536 TPR motif; other site 334406009537 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 334406009538 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 334406009539 G1 box; other site 334406009540 GTP/Mg2+ binding site [chemical binding]; other site 334406009541 Switch I region; other site 334406009542 G3 box; other site 334406009543 Switch II region; other site 334406009544 G4 box; other site 334406009545 G5 box; other site 334406009546 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 334406009547 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 334406009548 active site 334406009549 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406009550 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406009551 dimer interface [polypeptide binding]; other site 334406009552 phosphorylation site [posttranslational modification] 334406009553 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406009554 ATP binding site [chemical binding]; other site 334406009555 Mg2+ binding site [ion binding]; other site 334406009556 G-X-G motif; other site 334406009557 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406009558 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406009559 active site 334406009560 phosphorylation site [posttranslational modification] 334406009561 intermolecular recognition site; other site 334406009562 dimerization interface [polypeptide binding]; other site 334406009563 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406009564 DNA binding site [nucleotide binding] 334406009565 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 334406009566 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 334406009567 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 334406009568 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 334406009569 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 334406009570 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 334406009571 Walker A/P-loop; other site 334406009572 ATP binding site [chemical binding]; other site 334406009573 Q-loop/lid; other site 334406009574 ABC transporter signature motif; other site 334406009575 Walker B; other site 334406009576 D-loop; other site 334406009577 H-loop/switch region; other site 334406009578 Short C-terminal domain; Region: SHOCT; pfam09851 334406009579 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 334406009580 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406009581 ATP binding site [chemical binding]; other site 334406009582 Mg2+ binding site [ion binding]; other site 334406009583 G-X-G motif; other site 334406009584 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 334406009585 ATP binding site [chemical binding]; other site 334406009586 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 334406009587 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 334406009588 MutS domain I; Region: MutS_I; pfam01624 334406009589 MutS domain II; Region: MutS_II; pfam05188 334406009590 MutS domain III; Region: MutS_III; pfam05192 334406009591 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 334406009592 Walker A/P-loop; other site 334406009593 ATP binding site [chemical binding]; other site 334406009594 Q-loop/lid; other site 334406009595 ABC transporter signature motif; other site 334406009596 Walker B; other site 334406009597 D-loop; other site 334406009598 H-loop/switch region; other site 334406009599 Outer spore coat protein E (CotE); Region: CotE; pfam10628 334406009600 Predicted membrane protein [Function unknown]; Region: COG4550 334406009601 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 334406009602 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 334406009603 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406009604 FeS/SAM binding site; other site 334406009605 TRAM domain; Region: TRAM; pfam01938 334406009606 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 334406009607 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 334406009608 TPP-binding site [chemical binding]; other site 334406009609 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 334406009610 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 334406009611 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 334406009612 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 334406009613 dimer interface [polypeptide binding]; other site 334406009614 PYR/PP interface [polypeptide binding]; other site 334406009615 TPP binding site [chemical binding]; other site 334406009616 substrate binding site [chemical binding]; other site 334406009617 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334406009618 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 334406009619 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 334406009620 active site 334406009621 dimer interface [polypeptide binding]; other site 334406009622 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 334406009623 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 334406009624 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334406009625 putative active site [active] 334406009626 metal binding site [ion binding]; metal-binding site 334406009627 homodimer binding site [polypeptide binding]; other site 334406009628 phosphodiesterase; Provisional; Region: PRK12704 334406009629 Uncharacterized conserved protein [Function unknown]; Region: COG3334 334406009630 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334406009631 Zn2+ binding site [ion binding]; other site 334406009632 Mg2+ binding site [ion binding]; other site 334406009633 recA bacterial DNA recombination protein; Region: RecA; cl17211 334406009634 recA bacterial DNA recombination protein; Region: RecA; cl17211 334406009635 competence damage-inducible protein A; Provisional; Region: PRK00549 334406009636 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 334406009637 putative MPT binding site; other site 334406009638 Competence-damaged protein; Region: CinA; pfam02464 334406009639 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 334406009640 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 334406009641 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406009642 non-specific DNA binding site [nucleotide binding]; other site 334406009643 salt bridge; other site 334406009644 sequence-specific DNA binding site [nucleotide binding]; other site 334406009645 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 334406009646 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 334406009647 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 334406009648 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 334406009649 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 334406009650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334406009651 NAD(P) binding site [chemical binding]; other site 334406009652 active site 334406009653 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 334406009654 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 334406009655 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 334406009656 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 334406009657 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 334406009658 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 334406009659 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 334406009660 TM-ABC transporter signature motif; other site 334406009661 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 334406009662 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 334406009663 TM-ABC transporter signature motif; other site 334406009664 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 334406009665 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 334406009666 Walker A/P-loop; other site 334406009667 ATP binding site [chemical binding]; other site 334406009668 Q-loop/lid; other site 334406009669 ABC transporter signature motif; other site 334406009670 Walker B; other site 334406009671 D-loop; other site 334406009672 H-loop/switch region; other site 334406009673 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 334406009674 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 334406009675 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 334406009676 ligand binding site [chemical binding]; other site 334406009677 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 334406009678 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406009679 DNA-binding site [nucleotide binding]; DNA binding site 334406009680 UTRA domain; Region: UTRA; pfam07702 334406009681 Tetraspanin family; Region: Tetraspannin; pfam00335 334406009682 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 334406009683 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 334406009684 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 334406009685 YlzJ-like protein; Region: YlzJ; pfam14035 334406009686 Clp protease; Region: CLP_protease; pfam00574 334406009687 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 334406009688 active site 334406009689 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 334406009690 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406009691 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 334406009692 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 334406009693 dihydrodipicolinate synthase; Region: dapA; TIGR00674 334406009694 dimer interface [polypeptide binding]; other site 334406009695 active site 334406009696 catalytic residue [active] 334406009697 aspartate kinase I; Reviewed; Region: PRK08210 334406009698 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 334406009699 nucleotide binding site [chemical binding]; other site 334406009700 substrate binding site [chemical binding]; other site 334406009701 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 334406009702 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 334406009703 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 334406009704 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 334406009705 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 334406009706 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 334406009707 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 334406009708 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 334406009709 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 334406009710 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 334406009711 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 334406009712 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 334406009713 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 334406009714 NodB motif; other site 334406009715 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 334406009716 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 334406009717 RNase E interface [polypeptide binding]; other site 334406009718 trimer interface [polypeptide binding]; other site 334406009719 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 334406009720 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 334406009721 RNase E interface [polypeptide binding]; other site 334406009722 trimer interface [polypeptide binding]; other site 334406009723 active site 334406009724 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 334406009725 putative nucleic acid binding region [nucleotide binding]; other site 334406009726 G-X-X-G motif; other site 334406009727 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 334406009728 RNA binding site [nucleotide binding]; other site 334406009729 domain interface; other site 334406009730 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 334406009731 16S/18S rRNA binding site [nucleotide binding]; other site 334406009732 S13e-L30e interaction site [polypeptide binding]; other site 334406009733 25S rRNA binding site [nucleotide binding]; other site 334406009734 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 334406009735 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 334406009736 active site 334406009737 Riboflavin kinase; Region: Flavokinase; smart00904 334406009738 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 334406009739 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 334406009740 RNA binding site [nucleotide binding]; other site 334406009741 active site 334406009742 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 334406009743 Protein of unknown function (DUF503); Region: DUF503; pfam04456 334406009744 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 334406009745 translation initiation factor IF-2; Region: IF-2; TIGR00487 334406009746 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 334406009747 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 334406009748 G1 box; other site 334406009749 putative GEF interaction site [polypeptide binding]; other site 334406009750 GTP/Mg2+ binding site [chemical binding]; other site 334406009751 Switch I region; other site 334406009752 G2 box; other site 334406009753 G3 box; other site 334406009754 Switch II region; other site 334406009755 G4 box; other site 334406009756 G5 box; other site 334406009757 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 334406009758 Translation-initiation factor 2; Region: IF-2; pfam11987 334406009759 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 334406009760 hypothetical protein; Provisional; Region: PRK07714 334406009761 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 334406009762 putative RNA binding cleft [nucleotide binding]; other site 334406009763 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 334406009764 NusA N-terminal domain; Region: NusA_N; pfam08529 334406009765 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 334406009766 RNA binding site [nucleotide binding]; other site 334406009767 homodimer interface [polypeptide binding]; other site 334406009768 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 334406009769 G-X-X-G motif; other site 334406009770 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 334406009771 G-X-X-G motif; other site 334406009772 ribosome maturation protein RimP; Reviewed; Region: PRK00092 334406009773 Sm and related proteins; Region: Sm_like; cl00259 334406009774 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 334406009775 putative oligomer interface [polypeptide binding]; other site 334406009776 putative RNA binding site [nucleotide binding]; other site 334406009777 DNA polymerase III PolC; Validated; Region: polC; PRK00448 334406009778 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 334406009779 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 334406009780 generic binding surface II; other site 334406009781 generic binding surface I; other site 334406009782 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 334406009783 active site 334406009784 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 334406009785 active site 334406009786 catalytic site [active] 334406009787 substrate binding site [chemical binding]; other site 334406009788 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 334406009789 prolyl-tRNA synthetase; Provisional; Region: PRK09194 334406009790 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 334406009791 dimer interface [polypeptide binding]; other site 334406009792 motif 1; other site 334406009793 active site 334406009794 motif 2; other site 334406009795 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 334406009796 putative deacylase active site [active] 334406009797 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 334406009798 active site 334406009799 motif 3; other site 334406009800 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 334406009801 anticodon binding site; other site 334406009802 RIP metalloprotease RseP; Region: TIGR00054 334406009803 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 334406009804 active site 334406009805 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 334406009806 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 334406009807 protein binding site [polypeptide binding]; other site 334406009808 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 334406009809 putative substrate binding region [chemical binding]; other site 334406009810 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 334406009811 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 334406009812 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 334406009813 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 334406009814 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 334406009815 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 334406009816 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 334406009817 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 334406009818 catalytic residue [active] 334406009819 putative FPP diphosphate binding site; other site 334406009820 putative FPP binding hydrophobic cleft; other site 334406009821 dimer interface [polypeptide binding]; other site 334406009822 putative IPP diphosphate binding site; other site 334406009823 ribosome recycling factor; Reviewed; Region: frr; PRK00083 334406009824 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 334406009825 hinge region; other site 334406009826 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 334406009827 putative nucleotide binding site [chemical binding]; other site 334406009828 uridine monophosphate binding site [chemical binding]; other site 334406009829 homohexameric interface [polypeptide binding]; other site 334406009830 elongation factor Ts; Provisional; Region: tsf; PRK09377 334406009831 UBA/TS-N domain; Region: UBA; pfam00627 334406009832 Elongation factor TS; Region: EF_TS; pfam00889 334406009833 Elongation factor TS; Region: EF_TS; pfam00889 334406009834 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 334406009835 rRNA interaction site [nucleotide binding]; other site 334406009836 S8 interaction site; other site 334406009837 putative laminin-1 binding site; other site 334406009838 transcriptional repressor CodY; Validated; Region: PRK04158 334406009839 CodY GAF-like domain; Region: CodY; pfam06018 334406009840 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 334406009841 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 334406009842 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406009843 Walker A motif; other site 334406009844 ATP binding site [chemical binding]; other site 334406009845 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 334406009846 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 334406009847 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 334406009848 active site 334406009849 HslU subunit interaction site [polypeptide binding]; other site 334406009850 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 334406009851 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 334406009852 active site 334406009853 Int/Topo IB signature motif; other site 334406009854 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 334406009855 Glucose inhibited division protein A; Region: GIDA; pfam01134 334406009856 DNA topoisomerase I; Validated; Region: PRK05582 334406009857 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 334406009858 active site 334406009859 interdomain interaction site; other site 334406009860 putative metal-binding site [ion binding]; other site 334406009861 nucleotide binding site [chemical binding]; other site 334406009862 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 334406009863 domain I; other site 334406009864 DNA binding groove [nucleotide binding] 334406009865 phosphate binding site [ion binding]; other site 334406009866 domain II; other site 334406009867 domain III; other site 334406009868 nucleotide binding site [chemical binding]; other site 334406009869 catalytic site [active] 334406009870 domain IV; other site 334406009871 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 334406009872 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 334406009873 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 334406009874 DNA protecting protein DprA; Region: dprA; TIGR00732 334406009875 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 334406009876 CoA binding domain; Region: CoA_binding; smart00881 334406009877 CoA-ligase; Region: Ligase_CoA; pfam00549 334406009878 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 334406009879 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 334406009880 CoA-ligase; Region: Ligase_CoA; pfam00549 334406009881 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 334406009882 RNA/DNA hybrid binding site [nucleotide binding]; other site 334406009883 active site 334406009884 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 334406009885 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 334406009886 GTP/Mg2+ binding site [chemical binding]; other site 334406009887 G4 box; other site 334406009888 G5 box; other site 334406009889 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 334406009890 G1 box; other site 334406009891 G1 box; other site 334406009892 GTP/Mg2+ binding site [chemical binding]; other site 334406009893 Switch I region; other site 334406009894 G2 box; other site 334406009895 G2 box; other site 334406009896 G3 box; other site 334406009897 G3 box; other site 334406009898 Switch II region; other site 334406009899 Switch II region; other site 334406009900 G4 box; other site 334406009901 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 334406009902 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 334406009903 Catalytic site [active] 334406009904 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 334406009905 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 334406009906 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 334406009907 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 334406009908 RimM N-terminal domain; Region: RimM; pfam01782 334406009909 PRC-barrel domain; Region: PRC; pfam05239 334406009910 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 334406009911 KH domain; Region: KH_4; pfam13083 334406009912 G-X-X-G motif; other site 334406009913 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 334406009914 signal recognition particle protein; Provisional; Region: PRK10867 334406009915 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 334406009916 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 334406009917 P loop; other site 334406009918 GTP binding site [chemical binding]; other site 334406009919 Signal peptide binding domain; Region: SRP_SPB; pfam02978 334406009920 putative DNA-binding protein; Validated; Region: PRK00118 334406009921 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 334406009922 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 334406009923 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 334406009924 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 334406009925 P loop; other site 334406009926 GTP binding site [chemical binding]; other site 334406009927 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 334406009928 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 334406009929 Walker A/P-loop; other site 334406009930 ATP binding site [chemical binding]; other site 334406009931 Q-loop/lid; other site 334406009932 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 334406009933 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 334406009934 ABC transporter signature motif; other site 334406009935 Walker B; other site 334406009936 D-loop; other site 334406009937 H-loop/switch region; other site 334406009938 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 334406009939 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 334406009940 dimerization interface [polypeptide binding]; other site 334406009941 active site 334406009942 metal binding site [ion binding]; metal-binding site 334406009943 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 334406009944 dsRNA binding site [nucleotide binding]; other site 334406009945 acyl carrier protein; Provisional; Region: acpP; PRK00982 334406009946 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 334406009947 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 334406009948 NAD(P) binding site [chemical binding]; other site 334406009949 homotetramer interface [polypeptide binding]; other site 334406009950 homodimer interface [polypeptide binding]; other site 334406009951 active site 334406009952 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 334406009953 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 334406009954 putative phosphate acyltransferase; Provisional; Region: PRK05331 334406009955 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 334406009956 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 334406009957 active site 2 [active] 334406009958 active site 1 [active] 334406009959 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 334406009960 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 334406009961 generic binding surface II; other site 334406009962 ssDNA binding site; other site 334406009963 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 334406009964 ATP binding site [chemical binding]; other site 334406009965 putative Mg++ binding site [ion binding]; other site 334406009966 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406009967 nucleotide binding region [chemical binding]; other site 334406009968 ATP-binding site [chemical binding]; other site 334406009969 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 334406009970 DAK2 domain; Region: Dak2; pfam02734 334406009971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 334406009972 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 334406009973 Thiamine pyrophosphokinase; Region: TPK; cd07995 334406009974 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 334406009975 active site 334406009976 dimerization interface [polypeptide binding]; other site 334406009977 thiamine binding site [chemical binding]; other site 334406009978 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 334406009979 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 334406009980 substrate binding site [chemical binding]; other site 334406009981 hexamer interface [polypeptide binding]; other site 334406009982 metal binding site [ion binding]; metal-binding site 334406009983 GTPase RsgA; Reviewed; Region: PRK00098 334406009984 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 334406009985 RNA binding site [nucleotide binding]; other site 334406009986 homodimer interface [polypeptide binding]; other site 334406009987 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 334406009988 GTPase/Zn-binding domain interface [polypeptide binding]; other site 334406009989 GTP/Mg2+ binding site [chemical binding]; other site 334406009990 G4 box; other site 334406009991 G5 box; other site 334406009992 G1 box; other site 334406009993 Switch I region; other site 334406009994 G2 box; other site 334406009995 G3 box; other site 334406009996 Switch II region; other site 334406009997 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 334406009998 Catalytic domain of Protein Kinases; Region: PKc; cd00180 334406009999 active site 334406010000 ATP binding site [chemical binding]; other site 334406010001 substrate binding site [chemical binding]; other site 334406010002 activation loop (A-loop); other site 334406010003 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 334406010004 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 334406010005 PASTA domain; Region: PASTA; pfam03793 334406010006 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 334406010007 Protein phosphatase 2C; Region: PP2C; pfam00481 334406010008 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 334406010009 active site 334406010010 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 334406010011 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406010012 FeS/SAM binding site; other site 334406010013 16S rRNA methyltransferase B; Provisional; Region: PRK14902 334406010014 NusB family; Region: NusB; pfam01029 334406010015 putative RNA binding site [nucleotide binding]; other site 334406010016 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406010017 S-adenosylmethionine binding site [chemical binding]; other site 334406010018 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 334406010019 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 334406010020 putative active site [active] 334406010021 substrate binding site [chemical binding]; other site 334406010022 putative cosubstrate binding site; other site 334406010023 catalytic site [active] 334406010024 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 334406010025 substrate binding site [chemical binding]; other site 334406010026 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 334406010027 active site 334406010028 catalytic residues [active] 334406010029 metal binding site [ion binding]; metal-binding site 334406010030 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 334406010031 primosomal protein N' Region: priA; TIGR00595 334406010032 ATP binding site [chemical binding]; other site 334406010033 putative Mg++ binding site [ion binding]; other site 334406010034 helicase superfamily c-terminal domain; Region: HELICc; smart00490 334406010035 nucleotide binding region [chemical binding]; other site 334406010036 ATP-binding site [chemical binding]; other site 334406010037 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 334406010038 Flavoprotein; Region: Flavoprotein; pfam02441 334406010039 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 334406010040 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 334406010041 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 334406010042 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 334406010043 catalytic site [active] 334406010044 G-X2-G-X-G-K; other site 334406010045 hypothetical protein; Provisional; Region: PRK04323 334406010046 hypothetical protein; Provisional; Region: PRK11820 334406010047 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 334406010048 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 334406010049 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 334406010050 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 334406010051 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334406010052 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 334406010053 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406010054 motif II; other site 334406010055 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 334406010056 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 334406010057 Domain of unknown function (DUF814); Region: DUF814; pfam05670 334406010058 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 334406010059 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 334406010060 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 334406010061 active site 334406010062 DinB family; Region: DinB; cl17821 334406010063 DinB superfamily; Region: DinB_2; pfam12867 334406010064 YoqO-like protein; Region: YoqO; pfam14037 334406010065 YoqO-like protein; Region: YoqO; pfam14037 334406010066 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 334406010067 Protein of unknown function (DUF2651); Region: DUF2651; pfam10852 334406010068 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 334406010069 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334406010070 active site 334406010071 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 334406010072 active site 334406010073 dimer interface [polypeptide binding]; other site 334406010074 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 334406010075 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 334406010076 heterodimer interface [polypeptide binding]; other site 334406010077 active site 334406010078 FMN binding site [chemical binding]; other site 334406010079 homodimer interface [polypeptide binding]; other site 334406010080 substrate binding site [chemical binding]; other site 334406010081 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 334406010082 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 334406010083 FAD binding pocket [chemical binding]; other site 334406010084 FAD binding motif [chemical binding]; other site 334406010085 phosphate binding motif [ion binding]; other site 334406010086 beta-alpha-beta structure motif; other site 334406010087 NAD binding pocket [chemical binding]; other site 334406010088 Iron coordination center [ion binding]; other site 334406010089 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 334406010090 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334406010091 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 334406010092 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 334406010093 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334406010094 ATP-grasp domain; Region: ATP-grasp_4; cl17255 334406010095 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 334406010096 IMP binding site; other site 334406010097 dimer interface [polypeptide binding]; other site 334406010098 interdomain contacts; other site 334406010099 partial ornithine binding site; other site 334406010100 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 334406010101 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 334406010102 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 334406010103 catalytic site [active] 334406010104 subunit interface [polypeptide binding]; other site 334406010105 dihydroorotase; Validated; Region: pyrC; PRK09357 334406010106 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 334406010107 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 334406010108 active site 334406010109 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 334406010110 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 334406010111 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 334406010112 uracil transporter; Provisional; Region: PRK10720 334406010113 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 334406010114 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334406010115 active site 334406010116 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 334406010117 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 334406010118 RNA binding surface [nucleotide binding]; other site 334406010119 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 334406010120 active site 334406010121 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 334406010122 lipoprotein signal peptidase; Provisional; Region: PRK14787 334406010123 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 334406010124 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 334406010125 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 334406010126 active site 334406010127 HIGH motif; other site 334406010128 nucleotide binding site [chemical binding]; other site 334406010129 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 334406010130 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 334406010131 active site 334406010132 KMSKS motif; other site 334406010133 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 334406010134 tRNA binding surface [nucleotide binding]; other site 334406010135 anticodon binding site; other site 334406010136 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 334406010137 DivIVA protein; Region: DivIVA; pfam05103 334406010138 DivIVA domain; Region: DivI1A_domain; TIGR03544 334406010139 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 334406010140 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 334406010141 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 334406010142 RNA binding surface [nucleotide binding]; other site 334406010143 YGGT family; Region: YGGT; pfam02325 334406010144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 334406010145 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 334406010146 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 334406010147 catalytic residue [active] 334406010148 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 334406010149 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 334406010150 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 334406010151 sporulation sigma factor SigG; Reviewed; Region: PRK08215 334406010152 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406010153 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406010154 DNA binding residues [nucleotide binding] 334406010155 sporulation sigma factor SigE; Reviewed; Region: PRK08301 334406010156 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406010157 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406010158 DNA binding residues [nucleotide binding] 334406010159 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 334406010160 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 334406010161 cell division protein FtsZ; Validated; Region: PRK09330 334406010162 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 334406010163 nucleotide binding site [chemical binding]; other site 334406010164 SulA interaction site; other site 334406010165 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 334406010166 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 334406010167 nucleotide binding site [chemical binding]; other site 334406010168 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 334406010169 Cell division protein FtsA; Region: FtsA; pfam14450 334406010170 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 334406010171 Cell division protein FtsQ; Region: FtsQ; pfam03799 334406010172 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 334406010173 FAD binding domain; Region: FAD_binding_4; pfam01565 334406010174 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 334406010175 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 334406010176 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 334406010177 active site 334406010178 homodimer interface [polypeptide binding]; other site 334406010179 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 334406010180 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 334406010181 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 334406010182 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334406010183 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334406010184 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 334406010185 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 334406010186 Mg++ binding site [ion binding]; other site 334406010187 putative catalytic motif [active] 334406010188 putative substrate binding site [chemical binding]; other site 334406010189 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 334406010190 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334406010191 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334406010192 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334406010193 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 334406010194 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334406010195 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334406010196 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cd06573 334406010197 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 334406010198 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334406010199 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334406010200 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 334406010201 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 334406010202 Cell division protein FtsL; Region: FtsL; cl11433 334406010203 MraW methylase family; Region: Methyltransf_5; pfam01795 334406010204 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 334406010205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 334406010206 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 334406010207 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 334406010208 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 334406010209 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 334406010210 hypothetical protein; Provisional; Region: PRK13688 334406010211 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 334406010212 Coenzyme A binding pocket [chemical binding]; other site 334406010213 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 334406010214 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 334406010215 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 334406010216 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 334406010217 Replication-relaxation; Region: Replic_Relax; pfam13814 334406010218 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 334406010219 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406010220 non-specific DNA binding site [nucleotide binding]; other site 334406010221 salt bridge; other site 334406010222 sequence-specific DNA binding site [nucleotide binding]; other site 334406010223 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 334406010224 active site 334406010225 metal binding site [ion binding]; metal-binding site 334406010226 N-acetylmuramoyl-l-alanine amidase; Region: Amidase02_C; pfam12123 334406010227 Phage lysis protein, holin; Region: Phage_holin; cl04675 334406010228 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 334406010229 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 334406010230 active site 334406010231 catalytic residues [active] 334406010232 DNA binding site [nucleotide binding] 334406010233 Int/Topo IB signature motif; other site 334406010234 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 334406010235 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 334406010236 Phage tail protein; Region: Sipho_tail; cl17486 334406010237 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 334406010238 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 334406010239 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 334406010240 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 334406010241 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 334406010242 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 334406010243 oligomerization interface [polypeptide binding]; other site 334406010244 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 334406010245 Phage capsid family; Region: Phage_capsid; pfam05065 334406010246 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 334406010247 oligomer interface [polypeptide binding]; other site 334406010248 Clp protease; Region: CLP_protease; pfam00574 334406010249 active site residues [active] 334406010250 Phage-related protein [Function unknown]; Region: COG4695; cl01923 334406010251 Phage portal protein; Region: Phage_portal; pfam04860 334406010252 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 334406010253 Phage terminase, small subunit; Region: Terminase_4; cl01525 334406010254 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 334406010255 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 334406010256 active site 334406010257 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 334406010258 Int/Topo IB signature motif; other site 334406010259 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 334406010260 Protein of unknown function (DUF3983); Region: DUF3983; pfam13137 334406010261 NifQ; Region: NifQ; pfam04891 334406010262 YopX protein; Region: YopX; pfam09643 334406010263 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 334406010264 putative metal binding site [ion binding]; other site 334406010265 Protein of unknown function (DUF3954); Region: DUF3954; pfam13128 334406010266 hypothetical protein; Validated; Region: PRK08116 334406010267 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406010268 Walker A motif; other site 334406010269 ATP binding site [chemical binding]; other site 334406010270 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 334406010271 Helix-turn-helix domain; Region: HTH_17; pfam12728 334406010272 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406010273 non-specific DNA binding site [nucleotide binding]; other site 334406010274 salt bridge; other site 334406010275 sequence-specific DNA binding site [nucleotide binding]; other site 334406010276 transcriptional repressor DicA; Reviewed; Region: PRK09706 334406010277 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406010278 non-specific DNA binding site [nucleotide binding]; other site 334406010279 salt bridge; other site 334406010280 sequence-specific DNA binding site [nucleotide binding]; other site 334406010281 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406010282 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406010283 non-specific DNA binding site [nucleotide binding]; other site 334406010284 salt bridge; other site 334406010285 sequence-specific DNA binding site [nucleotide binding]; other site 334406010286 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 334406010287 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 334406010288 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 334406010289 Int/Topo IB signature motif; other site 334406010290 hypothetical protein; Provisional; Region: PRK13670 334406010291 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 334406010292 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 334406010293 PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ...; Region: PDZ_LON_protease; cd00986 334406010294 protein binding site [polypeptide binding]; other site 334406010295 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 334406010296 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 334406010297 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 334406010298 active site 334406010299 nucleophile elbow; other site 334406010300 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 334406010301 Nucleoside recognition; Region: Gate; pfam07670 334406010302 Nucleoside recognition; Region: Gate; pfam07670 334406010303 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 334406010304 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 334406010305 active site 334406010306 (T/H)XGH motif; other site 334406010307 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 334406010308 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406010309 S-adenosylmethionine binding site [chemical binding]; other site 334406010310 putative transposase OrfB; Reviewed; Region: PHA02517 334406010311 HTH-like domain; Region: HTH_21; pfam13276 334406010312 Integrase core domain; Region: rve; pfam00665 334406010313 Integrase core domain; Region: rve_2; pfam13333 334406010314 hypothetical protein; Provisional; Region: PRK02886 334406010315 Protein of unknown function (DUF964); Region: DUF964; pfam06133 334406010316 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 334406010317 catalytic core [active] 334406010318 YlbE-like protein; Region: YlbE; pfam14003 334406010319 Putative coat protein; Region: YlbD_coat; pfam14071 334406010320 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 334406010321 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 334406010322 YugN-like family; Region: YugN; pfam08868 334406010323 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 334406010324 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 334406010325 putative active site [active] 334406010326 putative NTP binding site [chemical binding]; other site 334406010327 putative nucleic acid binding site [nucleotide binding]; other site 334406010328 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 334406010329 active site 334406010330 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 334406010331 cytochrome c oxidase assembly factor CtaG; Region: caa3_CtaG; TIGR02737 334406010332 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 334406010333 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 334406010334 Subunit I/III interface [polypeptide binding]; other site 334406010335 Subunit III/IV interface [polypeptide binding]; other site 334406010336 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 334406010337 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 334406010338 D-pathway; other site 334406010339 Putative ubiquinol binding site [chemical binding]; other site 334406010340 Low-spin heme (heme b) binding site [chemical binding]; other site 334406010341 Putative water exit pathway; other site 334406010342 Binuclear center (heme o3/CuB) [ion binding]; other site 334406010343 K-pathway; other site 334406010344 Putative proton exit pathway; other site 334406010345 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 334406010346 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 334406010347 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 334406010348 Cytochrome c; Region: Cytochrom_C; pfam00034 334406010349 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 334406010350 UbiA prenyltransferase family; Region: UbiA; pfam01040 334406010351 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 334406010352 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 334406010353 pyruvate carboxylase; Reviewed; Region: PRK12999 334406010354 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334406010355 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 334406010356 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 334406010357 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 334406010358 active site 334406010359 catalytic residues [active] 334406010360 metal binding site [ion binding]; metal-binding site 334406010361 homodimer binding site [polypeptide binding]; other site 334406010362 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 334406010363 carboxyltransferase (CT) interaction site; other site 334406010364 biotinylation site [posttranslational modification]; other site 334406010365 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 334406010366 hypothetical protein; Provisional; Region: PRK13666 334406010367 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 334406010368 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 334406010369 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 334406010370 putative active site [active] 334406010371 PhoH-like protein; Region: PhoH; pfam02562 334406010372 hypothetical protein; Provisional; Region: PRK06733 334406010373 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; pfam09963 334406010374 YlaH-like protein; Region: YlaH; pfam14036 334406010375 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 334406010376 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 334406010377 G1 box; other site 334406010378 putative GEF interaction site [polypeptide binding]; other site 334406010379 GTP/Mg2+ binding site [chemical binding]; other site 334406010380 Switch I region; other site 334406010381 G2 box; other site 334406010382 G3 box; other site 334406010383 Switch II region; other site 334406010384 G4 box; other site 334406010385 G5 box; other site 334406010386 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 334406010387 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 334406010388 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 334406010389 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 334406010390 active site 334406010391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 334406010392 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 334406010393 Uncharacterized protein family (UPF0223); Region: UPF0223; pfam05256 334406010394 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 334406010395 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 334406010396 homodimer interface [polypeptide binding]; other site 334406010397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406010398 catalytic residue [active] 334406010399 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 334406010400 transglutaminase; Provisional; Region: tgl; PRK03187 334406010401 Domain of unknown function (DUF4182); Region: DUF4182; pfam13790 334406010402 Domain of unknown function (DUF4182); Region: DUF4182; pfam13790 334406010403 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 334406010404 Domain of unknown function (DUF1885); Region: DUF1885; pfam08968 334406010405 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 334406010406 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334406010407 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 334406010408 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 334406010409 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 334406010410 E3 interaction surface; other site 334406010411 lipoyl attachment site [posttranslational modification]; other site 334406010412 e3 binding domain; Region: E3_binding; pfam02817 334406010413 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 334406010414 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 334406010415 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 334406010416 alpha subunit interface [polypeptide binding]; other site 334406010417 TPP binding site [chemical binding]; other site 334406010418 heterodimer interface [polypeptide binding]; other site 334406010419 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334406010420 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 334406010421 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 334406010422 TPP-binding site [chemical binding]; other site 334406010423 heterodimer interface [polypeptide binding]; other site 334406010424 tetramer interface [polypeptide binding]; other site 334406010425 phosphorylation loop region [posttranslational modification] 334406010426 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 334406010427 active site 334406010428 catalytic residues [active] 334406010429 metal binding site [ion binding]; metal-binding site 334406010430 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406010431 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334406010432 active site 334406010433 motif I; other site 334406010434 motif II; other site 334406010435 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406010436 hypothetical protein; Provisional; Region: PRK13667 334406010437 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 334406010438 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406010439 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 334406010440 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 334406010441 TrkA-N domain; Region: TrkA_N; pfam02254 334406010442 TrkA-C domain; Region: TrkA_C; pfam02080 334406010443 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 334406010444 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 334406010445 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 334406010446 metal binding site [ion binding]; metal-binding site 334406010447 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 334406010448 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 334406010449 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 334406010450 trimer interface [polypeptide binding]; other site 334406010451 active site 334406010452 substrate binding site [chemical binding]; other site 334406010453 CoA binding site [chemical binding]; other site 334406010454 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334406010455 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334406010456 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 334406010457 dimerization interface [polypeptide binding]; other site 334406010458 FOG: CBS domain [General function prediction only]; Region: COG0517 334406010459 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 334406010460 Antirepressor AbbA; Region: AbbA_antirepres; pfam14156 334406010461 Protein of unknown function (DUF458); Region: DUF458; pfam04308 334406010462 Protein of unknown function (DUF1797); Region: DUF1797; pfam08796 334406010463 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 334406010464 catalytic residues [active] 334406010465 Protein of unknown function (DUF3993); Region: DUF3993; pfam13158 334406010466 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 334406010467 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 334406010468 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 334406010469 short chain dehydrogenase; Provisional; Region: PRK07677 334406010470 NAD(P) binding site [chemical binding]; other site 334406010471 substrate binding site [chemical binding]; other site 334406010472 homotetramer interface [polypeptide binding]; other site 334406010473 active site 334406010474 homodimer interface [polypeptide binding]; other site 334406010475 phosphodiesterase YaeI; Provisional; Region: PRK11340 334406010476 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 334406010477 putative active site [active] 334406010478 putative metal binding site [ion binding]; other site 334406010479 polyphosphate kinase; Provisional; Region: PRK05443 334406010480 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 334406010481 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 334406010482 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 334406010483 putative domain interface [polypeptide binding]; other site 334406010484 putative active site [active] 334406010485 catalytic site [active] 334406010486 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 334406010487 putative domain interface [polypeptide binding]; other site 334406010488 putative active site [active] 334406010489 catalytic site [active] 334406010490 exopolyphosphatase; Region: exo_poly_only; TIGR03706 334406010491 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 334406010492 YkyB-like protein; Region: YkyB; pfam14177 334406010493 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 334406010494 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 334406010495 I-site; other site 334406010496 active site 334406010497 metal binding site [ion binding]; metal-binding site 334406010498 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406010499 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406010500 putative substrate translocation pore; other site 334406010501 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 334406010502 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 334406010503 DNA binding residues [nucleotide binding] 334406010504 Probable transposase; Region: OrfB_IS605; pfam01385 334406010505 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334406010506 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334406010507 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 334406010508 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406010509 Transcriptional regulator PadR-like family; Region: PadR; cl17335 334406010510 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 334406010511 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 334406010512 THF binding site; other site 334406010513 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 334406010514 substrate binding site [chemical binding]; other site 334406010515 THF binding site; other site 334406010516 zinc-binding site [ion binding]; other site 334406010517 Competence protein J (ComJ); Region: ComJ; pfam11033 334406010518 Deoxyribonuclease NucA/NucB; Region: DNase_NucA_NucB; pfam14040 334406010519 Protein of unknown function (DUF3967); Region: DUF3967; pfam13152 334406010520 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406010521 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406010522 dimer interface [polypeptide binding]; other site 334406010523 phosphorylation site [posttranslational modification] 334406010524 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406010525 ATP binding site [chemical binding]; other site 334406010526 Mg2+ binding site [ion binding]; other site 334406010527 G-X-G motif; other site 334406010528 aminotransferase A; Validated; Region: PRK07683 334406010529 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406010530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406010531 homodimer interface [polypeptide binding]; other site 334406010532 catalytic residue [active] 334406010533 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334406010534 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334406010535 DNA binding site [nucleotide binding] 334406010536 domain linker motif; other site 334406010537 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 334406010538 putative dimerization interface [polypeptide binding]; other site 334406010539 putative ligand binding site [chemical binding]; other site 334406010540 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 334406010541 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406010542 dimer interface [polypeptide binding]; other site 334406010543 conserved gate region; other site 334406010544 putative PBP binding loops; other site 334406010545 ABC-ATPase subunit interface; other site 334406010546 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406010547 dimer interface [polypeptide binding]; other site 334406010548 conserved gate region; other site 334406010549 putative PBP binding loops; other site 334406010550 ABC-ATPase subunit interface; other site 334406010551 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 334406010552 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 334406010553 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 334406010554 homodimer interface [polypeptide binding]; other site 334406010555 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 334406010556 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 334406010557 active site 334406010558 homodimer interface [polypeptide binding]; other site 334406010559 catalytic site [active] 334406010560 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 334406010561 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 334406010562 Ca binding site [ion binding]; other site 334406010563 active site 334406010564 catalytic site [active] 334406010565 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 334406010566 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 334406010567 Walker A/P-loop; other site 334406010568 ATP binding site [chemical binding]; other site 334406010569 Q-loop/lid; other site 334406010570 ABC transporter signature motif; other site 334406010571 Walker B; other site 334406010572 D-loop; other site 334406010573 H-loop/switch region; other site 334406010574 TOBE domain; Region: TOBE_2; pfam08402 334406010575 hypothetical protein; Provisional; Region: PRK06720 334406010576 NAD(P) binding site [chemical binding]; other site 334406010577 RDD family; Region: RDD; pfam06271 334406010578 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 334406010579 Protein of unknown function (DUF3997); Region: DUF3997; pfam13162 334406010580 Domain of unknown function (DUF4184); Region: DUF4184; pfam13803 334406010581 Predicted ATPase [General function prediction only]; Region: COG3910 334406010582 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406010583 Walker A/P-loop; other site 334406010584 ATP binding site [chemical binding]; other site 334406010585 Q-loop/lid; other site 334406010586 ABC transporter signature motif; other site 334406010587 Walker B; other site 334406010588 D-loop; other site 334406010589 H-loop/switch region; other site 334406010590 putative acyltransferase; Provisional; Region: PRK05790 334406010591 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 334406010592 dimer interface [polypeptide binding]; other site 334406010593 active site 334406010594 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 334406010595 nudix motif; other site 334406010596 Protein of unknown function (DUF3928); Region: DUF3928; pfam13065 334406010597 hypothetical protein; Validated; Region: PRK07668 334406010598 hypothetical protein; Validated; Region: PRK07668 334406010599 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406010600 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 334406010601 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 334406010602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334406010603 NAD(P) binding site [chemical binding]; other site 334406010604 active site 334406010605 YvrJ protein family; Region: YvrJ; pfam12841 334406010606 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 334406010607 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 334406010608 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 334406010609 Phosphotransferase enzyme family; Region: APH; pfam01636 334406010610 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 334406010611 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 334406010612 putative active site [active] 334406010613 putative NTP binding site [chemical binding]; other site 334406010614 putative nucleic acid binding site [nucleotide binding]; other site 334406010615 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 334406010616 active site 334406010617 Predicted amidohydrolase [General function prediction only]; Region: COG0388 334406010618 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 334406010619 putative active site [active] 334406010620 catalytic triad [active] 334406010621 putative dimer interface [polypeptide binding]; other site 334406010622 transaminase; Reviewed; Region: PRK08068 334406010623 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406010624 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406010625 homodimer interface [polypeptide binding]; other site 334406010626 catalytic residue [active] 334406010627 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 334406010628 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: RLP_DK-MTP-1-P-enolase; cd08209 334406010629 dimer interface [polypeptide binding]; other site 334406010630 active site 334406010631 catalytic residue [active] 334406010632 metal binding site [ion binding]; metal-binding site 334406010633 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed; Region: mtnX; PRK09552 334406010634 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 334406010635 methylthioribulose-1-phosphate dehydratase; Reviewed; Region: mtnB; PRK06754 334406010636 intersubunit interface [polypeptide binding]; other site 334406010637 active site 334406010638 Zn2+ binding site [ion binding]; other site 334406010639 ARD/ARD' family; Region: ARD; pfam03079 334406010640 Cupin domain; Region: Cupin_2; pfam07883 334406010641 Protein of unknown function (DUF3909); Region: DUF3909; pfam13077 334406010642 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 334406010643 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 334406010644 Beta-lactamase; Region: Beta-lactamase; pfam00144 334406010645 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 334406010646 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 334406010647 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 334406010648 metal binding site [ion binding]; metal-binding site 334406010649 active site 334406010650 I-site; other site 334406010651 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 334406010652 dimer interface [polypeptide binding]; other site 334406010653 FMN binding site [chemical binding]; other site 334406010654 Protein of unknown function (DUF3915); Region: DUF3915; pfam13054 334406010655 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 334406010656 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 334406010657 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 334406010658 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 334406010659 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 334406010660 dimerization domain swap beta strand [polypeptide binding]; other site 334406010661 regulatory protein interface [polypeptide binding]; other site 334406010662 active site 334406010663 regulatory phosphorylation site [posttranslational modification]; other site 334406010664 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 334406010665 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 334406010666 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 334406010667 active site turn [active] 334406010668 phosphorylation site [posttranslational modification] 334406010669 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 334406010670 HPr interaction site; other site 334406010671 glycerol kinase (GK) interaction site [polypeptide binding]; other site 334406010672 active site 334406010673 phosphorylation site [posttranslational modification] 334406010674 transcriptional antiterminator BglG; Provisional; Region: PRK09772 334406010675 CAT RNA binding domain; Region: CAT_RBD; smart01061 334406010676 PRD domain; Region: PRD; pfam00874 334406010677 PRD domain; Region: PRD; pfam00874 334406010678 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334406010679 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406010680 active site 334406010681 motif I; other site 334406010682 motif II; other site 334406010683 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406010684 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 334406010685 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406010686 DNA-binding site [nucleotide binding]; DNA binding site 334406010687 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 334406010688 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 334406010689 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 334406010690 active site 334406010691 trimer interface [polypeptide binding]; other site 334406010692 allosteric site; other site 334406010693 active site lid [active] 334406010694 hexamer (dimer of trimers) interface [polypeptide binding]; other site 334406010695 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 334406010696 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 334406010697 active site 334406010698 dimer interface [polypeptide binding]; other site 334406010699 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 334406010700 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406010701 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 334406010702 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 334406010703 Domain of unknown function (DUF309); Region: DUF309; pfam03745 334406010704 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406010705 Coenzyme A binding pocket [chemical binding]; other site 334406010706 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 334406010707 active site 334406010708 Predicted secreted protein [Function unknown]; Region: COG4086 334406010709 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 334406010710 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334406010711 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 334406010712 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 334406010713 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 334406010714 Stage V sporulation protein AE1; Region: SpoVAE; pfam14097 334406010715 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 334406010716 stage V sporulation protein AD; Validated; Region: PRK08304 334406010717 stage V sporulation protein AD; Provisional; Region: PRK12404 334406010718 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 334406010719 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 334406010720 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 334406010721 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 334406010722 Na2 binding site [ion binding]; other site 334406010723 putative substrate binding site 1 [chemical binding]; other site 334406010724 Na binding site 1 [ion binding]; other site 334406010725 putative substrate binding site 2 [chemical binding]; other site 334406010726 sporulation sigma factor SigF; Validated; Region: PRK05572 334406010727 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406010728 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 334406010729 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406010730 DNA binding residues [nucleotide binding] 334406010731 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 334406010732 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406010733 ATP binding site [chemical binding]; other site 334406010734 Mg2+ binding site [ion binding]; other site 334406010735 G-X-G motif; other site 334406010736 anti-sigma F factor antagonist; Region: spore_II_AA; TIGR02886 334406010737 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 334406010738 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334406010739 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 334406010740 Predicted transcriptional regulators [Transcription]; Region: COG1725 334406010741 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406010742 DNA-binding site [nucleotide binding]; DNA binding site 334406010743 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334406010744 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334406010745 Walker A/P-loop; other site 334406010746 ATP binding site [chemical binding]; other site 334406010747 Q-loop/lid; other site 334406010748 ABC transporter signature motif; other site 334406010749 Walker B; other site 334406010750 D-loop; other site 334406010751 H-loop/switch region; other site 334406010752 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 334406010753 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406010754 MarR family; Region: MarR; pfam01047 334406010755 MarR family; Region: MarR_2; cl17246 334406010756 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 334406010757 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 334406010758 putative transposase OrfB; Reviewed; Region: PHA02517 334406010759 HTH-like domain; Region: HTH_21; pfam13276 334406010760 Integrase core domain; Region: rve; pfam00665 334406010761 Integrase core domain; Region: rve_2; pfam13333 334406010762 Uncharacterized bacterial subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u2; cd12831 334406010763 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 334406010764 oligomer interface [polypeptide binding]; other site 334406010765 metal binding site [ion binding]; metal-binding site 334406010766 metal binding site [ion binding]; metal-binding site 334406010767 putative Cl binding site [ion binding]; other site 334406010768 aspartate ring; other site 334406010769 basic sphincter; other site 334406010770 hydrophobic gate; other site 334406010771 periplasmic entrance; other site 334406010772 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 334406010773 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 334406010774 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 334406010775 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 334406010776 purine nucleoside phosphorylase; Provisional; Region: PRK08202 334406010777 phosphopentomutase; Provisional; Region: PRK05362 334406010778 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 334406010779 YtkA-like; Region: YtkA; pfam13115 334406010780 YtkA-like; Region: YtkA; pfam13115 334406010781 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 334406010782 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 334406010783 active site 334406010784 Int/Topo IB signature motif; other site 334406010785 Protein of unknown function (DUF4227); Region: DUF4227; pfam14004 334406010786 ferric uptake regulator; Provisional; Region: fur; PRK09462 334406010787 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 334406010788 metal binding site 2 [ion binding]; metal-binding site 334406010789 putative DNA binding helix; other site 334406010790 metal binding site 1 [ion binding]; metal-binding site 334406010791 dimer interface [polypeptide binding]; other site 334406010792 structural Zn2+ binding site [ion binding]; other site 334406010793 stage II sporulation protein M; Region: spo_II_M; TIGR02831 334406010794 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406010795 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334406010796 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 334406010797 dimer interface [polypeptide binding]; other site 334406010798 ADP-ribose binding site [chemical binding]; other site 334406010799 active site 334406010800 nudix motif; other site 334406010801 metal binding site [ion binding]; metal-binding site 334406010802 Protein of unknown function (DUF3936); Region: DUF3936; pfam13072 334406010803 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 334406010804 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334406010805 active site 334406010806 catalytic tetrad [active] 334406010807 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 334406010808 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334406010809 active site 334406010810 catalytic tetrad [active] 334406010811 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 334406010812 Protein of unknown function (DUF3886); Region: DUF3886; pfam13025 334406010813 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 334406010814 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 334406010815 putative active site [active] 334406010816 putative metal binding site [ion binding]; other site 334406010817 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 334406010818 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 334406010819 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 334406010820 Predicted permease [General function prediction only]; Region: COG2056 334406010821 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 334406010822 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 334406010823 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334406010824 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334406010825 DNA binding site [nucleotide binding] 334406010826 domain linker motif; other site 334406010827 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 334406010828 dimerization interface [polypeptide binding]; other site 334406010829 ligand binding site [chemical binding]; other site 334406010830 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 334406010831 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406010832 Coenzyme A binding pocket [chemical binding]; other site 334406010833 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 334406010834 Protein of unknown function (DUF2552); Region: DUF2552; pfam10827 334406010835 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 334406010836 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 334406010837 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 334406010838 catalytic motif [active] 334406010839 Zn binding site [ion binding]; other site 334406010840 RibD C-terminal domain; Region: RibD_C; cl17279 334406010841 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 334406010842 Lumazine binding domain; Region: Lum_binding; pfam00677 334406010843 Lumazine binding domain; Region: Lum_binding; pfam00677 334406010844 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 334406010845 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 334406010846 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 334406010847 dimerization interface [polypeptide binding]; other site 334406010848 active site 334406010849 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 334406010850 homopentamer interface [polypeptide binding]; other site 334406010851 active site 334406010852 biotin synthase; Validated; Region: PRK06256 334406010853 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406010854 FeS/SAM binding site; other site 334406010855 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 334406010856 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 334406010857 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406010858 S-adenosylmethionine binding site [chemical binding]; other site 334406010859 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 334406010860 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 334406010861 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 334406010862 substrate-cofactor binding pocket; other site 334406010863 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406010864 catalytic residue [active] 334406010865 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 334406010866 AAA domain; Region: AAA_26; pfam13500 334406010867 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 334406010868 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 334406010869 inhibitor-cofactor binding pocket; inhibition site 334406010870 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406010871 catalytic residue [active] 334406010872 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 334406010873 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK09418 334406010874 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 334406010875 active site 334406010876 metal binding site [ion binding]; metal-binding site 334406010877 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 334406010878 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 334406010879 active site 334406010880 catalytic triad [active] 334406010881 oxyanion hole [active] 334406010882 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406010883 dimerization interface [polypeptide binding]; other site 334406010884 putative DNA binding site [nucleotide binding]; other site 334406010885 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406010886 putative Zn2+ binding site [ion binding]; other site 334406010887 ornithine carbamoyltransferase; Provisional; Region: PRK00779 334406010888 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 334406010889 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 334406010890 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 334406010891 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 334406010892 inhibitor-cofactor binding pocket; inhibition site 334406010893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406010894 catalytic residue [active] 334406010895 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 334406010896 nucleotide binding site [chemical binding]; other site 334406010897 N-acetyl-L-glutamate binding site [chemical binding]; other site 334406010898 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 334406010899 heterotetramer interface [polypeptide binding]; other site 334406010900 active site pocket [active] 334406010901 cleavage site 334406010902 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 334406010903 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 334406010904 YqzH-like protein; Region: YqzH; pfam14164 334406010905 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 334406010906 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334406010907 NAD(P) binding site [chemical binding]; other site 334406010908 active site 334406010909 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406010910 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK07679 334406010911 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 334406010912 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 334406010913 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 334406010914 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 334406010915 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 334406010916 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 334406010917 putative L-serine binding site [chemical binding]; other site 334406010918 ribonuclease Z; Region: RNase_Z; TIGR02651 334406010919 Protein of unknown function (DUF3932); Region: DUF3932; pfam13068 334406010920 DNA polymerase IV; Validated; Region: PRK01810 334406010921 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 334406010922 active site 334406010923 DNA binding site [nucleotide binding] 334406010924 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 334406010925 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 334406010926 peptidase T-like protein; Region: PepT-like; TIGR01883 334406010927 metal binding site [ion binding]; metal-binding site 334406010928 putative dimer interface [polypeptide binding]; other site 334406010929 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334406010930 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406010931 Protein of unknown function (DUF3894); Region: DUF3894; pfam13033 334406010932 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 334406010933 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 334406010934 Predicted membrane protein [Function unknown]; Region: COG4129 334406010935 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 334406010936 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 334406010937 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334406010938 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 334406010939 Walker A/P-loop; other site 334406010940 ATP binding site [chemical binding]; other site 334406010941 Q-loop/lid; other site 334406010942 ABC transporter signature motif; other site 334406010943 Walker B; other site 334406010944 D-loop; other site 334406010945 H-loop/switch region; other site 334406010946 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 334406010947 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406010948 dimer interface [polypeptide binding]; other site 334406010949 conserved gate region; other site 334406010950 putative PBP binding loops; other site 334406010951 ABC-ATPase subunit interface; other site 334406010952 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334406010953 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 334406010954 substrate binding pocket [chemical binding]; other site 334406010955 membrane-bound complex binding site; other site 334406010956 hinge residues; other site 334406010957 Disulphide isomerase; Region: Disulph_isomer; pfam06491 334406010958 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 334406010959 nudix motif; other site 334406010960 Predicted membrane protein [Function unknown]; Region: COG2323 334406010961 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 334406010962 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 334406010963 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 334406010964 E3 interaction surface; other site 334406010965 lipoyl attachment site [posttranslational modification]; other site 334406010966 e3 binding domain; Region: E3_binding; pfam02817 334406010967 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 334406010968 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 334406010969 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 334406010970 alpha subunit interface [polypeptide binding]; other site 334406010971 TPP binding site [chemical binding]; other site 334406010972 heterodimer interface [polypeptide binding]; other site 334406010973 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334406010974 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 334406010975 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 334406010976 tetramer interface [polypeptide binding]; other site 334406010977 TPP-binding site [chemical binding]; other site 334406010978 heterodimer interface [polypeptide binding]; other site 334406010979 phosphorylation loop region [posttranslational modification] 334406010980 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 334406010981 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 334406010982 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334406010983 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 334406010984 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 334406010985 nucleotide binding site [chemical binding]; other site 334406010986 Acetokinase family; Region: Acetate_kinase; cl17229 334406010987 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 334406010988 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 334406010989 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 334406010990 NAD binding site [chemical binding]; other site 334406010991 Phe binding site; other site 334406010992 phosphate butyryltransferase; Validated; Region: PRK07742 334406010993 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 334406010994 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 334406010995 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406010996 putative active site [active] 334406010997 heme pocket [chemical binding]; other site 334406010998 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406010999 putative active site [active] 334406011000 heme pocket [chemical binding]; other site 334406011001 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406011002 Walker A motif; other site 334406011003 ATP binding site [chemical binding]; other site 334406011004 Walker B motif; other site 334406011005 arginine finger; other site 334406011006 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 334406011007 Protein of unknown function (DUF2627); Region: DUF2627; pfam11118 334406011008 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 334406011009 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 334406011010 active site 334406011011 catalytic site [active] 334406011012 metal binding site [ion binding]; metal-binding site 334406011013 dimer interface [polypeptide binding]; other site 334406011014 YycC-like protein; Region: YycC; pfam14174 334406011015 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 334406011016 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406011017 active site 334406011018 phosphorylation site [posttranslational modification] 334406011019 intermolecular recognition site; other site 334406011020 dimerization interface [polypeptide binding]; other site 334406011021 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 334406011022 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 334406011023 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 334406011024 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 334406011025 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 334406011026 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 334406011027 Walker A/P-loop; other site 334406011028 ATP binding site [chemical binding]; other site 334406011029 Q-loop/lid; other site 334406011030 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 334406011031 ABC transporter signature motif; other site 334406011032 Walker B; other site 334406011033 D-loop; other site 334406011034 H-loop/switch region; other site 334406011035 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 334406011036 arginine repressor; Provisional; Region: PRK04280 334406011037 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 334406011038 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 334406011039 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 334406011040 RNA binding surface [nucleotide binding]; other site 334406011041 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 334406011042 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 334406011043 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 334406011044 TPP-binding site; other site 334406011045 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 334406011046 PYR/PP interface [polypeptide binding]; other site 334406011047 dimer interface [polypeptide binding]; other site 334406011048 TPP binding site [chemical binding]; other site 334406011049 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334406011050 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 334406011051 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 334406011052 substrate binding pocket [chemical binding]; other site 334406011053 chain length determination region; other site 334406011054 substrate-Mg2+ binding site; other site 334406011055 catalytic residues [active] 334406011056 aspartate-rich region 1; other site 334406011057 active site lid residues [active] 334406011058 aspartate-rich region 2; other site 334406011059 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14063 334406011060 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 334406011061 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 334406011062 generic binding surface II; other site 334406011063 generic binding surface I; other site 334406011064 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 334406011065 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 334406011066 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 334406011067 homodimer interface [polypeptide binding]; other site 334406011068 NADP binding site [chemical binding]; other site 334406011069 substrate binding site [chemical binding]; other site 334406011070 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 334406011071 putative RNA binding site [nucleotide binding]; other site 334406011072 Asp23 family; Region: Asp23; pfam03780 334406011073 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 334406011074 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334406011075 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 334406011076 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 334406011077 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 334406011078 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 334406011079 carboxyltransferase (CT) interaction site; other site 334406011080 biotinylation site [posttranslational modification]; other site 334406011081 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 334406011082 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 334406011083 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 334406011084 stage III sporulation protein AE; Region: spore_III_AE; TIGR02829 334406011085 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 334406011086 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 334406011087 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 334406011088 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 334406011089 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406011090 Walker A motif; other site 334406011091 ATP binding site [chemical binding]; other site 334406011092 Walker B motif; other site 334406011093 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 334406011094 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406011095 elongation factor P; Validated; Region: PRK00529 334406011096 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 334406011097 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 334406011098 RNA binding site [nucleotide binding]; other site 334406011099 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 334406011100 RNA binding site [nucleotide binding]; other site 334406011101 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 334406011102 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 334406011103 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 334406011104 active site 334406011105 Dehydroquinase class II; Region: DHquinase_II; pfam01220 334406011106 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 334406011107 trimer interface [polypeptide binding]; other site 334406011108 active site 334406011109 dimer interface [polypeptide binding]; other site 334406011110 Conserved membrane protein YqhR; Region: YqhR; pfam11085 334406011111 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 334406011112 manganese transport transcriptional regulator; Provisional; Region: PRK03902 334406011113 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 334406011114 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 334406011115 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 334406011116 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406011117 FeS/SAM binding site; other site 334406011118 Predicted transcriptional regulators [Transcription]; Region: COG1695 334406011119 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 334406011120 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 334406011121 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 334406011122 active site residue [active] 334406011123 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334406011124 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334406011125 DNA binding site [nucleotide binding] 334406011126 domain linker motif; other site 334406011127 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 334406011128 putative dimerization interface [polypeptide binding]; other site 334406011129 putative ligand binding site [chemical binding]; other site 334406011130 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406011131 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406011132 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 334406011133 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 334406011134 Protein of unknown function (DUF3975); Region: DUF3975; pfam13126 334406011135 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 334406011136 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 334406011137 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 334406011138 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 334406011139 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334406011140 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334406011141 Walker A/P-loop; other site 334406011142 ATP binding site [chemical binding]; other site 334406011143 Q-loop/lid; other site 334406011144 ABC transporter signature motif; other site 334406011145 Walker B; other site 334406011146 D-loop; other site 334406011147 H-loop/switch region; other site 334406011148 Predicted transcriptional regulators [Transcription]; Region: COG1725 334406011149 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406011150 DNA-binding site [nucleotide binding]; DNA binding site 334406011151 Protein of unknown function (DUF3929); Region: DUF3929; pfam13066 334406011152 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 334406011153 tetramer interface [polypeptide binding]; other site 334406011154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406011155 catalytic residue [active] 334406011156 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 334406011157 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 334406011158 tetramer interface [polypeptide binding]; other site 334406011159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406011160 catalytic residue [active] 334406011161 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 334406011162 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 334406011163 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 334406011164 DEAD-like helicases superfamily; Region: DEXDc; smart00487 334406011165 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 334406011166 ATP binding site [chemical binding]; other site 334406011167 putative Mg++ binding site [ion binding]; other site 334406011168 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406011169 nucleotide binding region [chemical binding]; other site 334406011170 ATP-binding site [chemical binding]; other site 334406011171 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 334406011172 YqzE-like protein; Region: YqzE; pfam14038 334406011173 shikimate kinase; Reviewed; Region: aroK; PRK00131 334406011174 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 334406011175 ADP binding site [chemical binding]; other site 334406011176 magnesium binding site [ion binding]; other site 334406011177 putative shikimate binding site; other site 334406011178 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 334406011179 ComG operon protein 7; Region: ComGG; pfam14173 334406011180 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 334406011181 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 334406011182 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 334406011183 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 334406011184 Type II/IV secretion system protein; Region: T2SE; pfam00437 334406011185 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 334406011186 Walker A motif; other site 334406011187 ATP binding site [chemical binding]; other site 334406011188 Walker B motif; other site 334406011189 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406011190 putative DNA binding site [nucleotide binding]; other site 334406011191 iron-sulfur cluster biosynthesis transcriptional regulator SufR; Region: SufR_cyano; TIGR02702 334406011192 putative Zn2+ binding site [ion binding]; other site 334406011193 Protein of unknown function (DUF2626); Region: DUF2626; pfam11117 334406011194 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 334406011195 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 334406011196 Protein of unknown function (DUF3912); Region: DUF3912; pfam13051 334406011197 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl17818 334406011198 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 334406011199 Protein of unknown function (DUF3966); Region: DUF3966; pfam13110 334406011200 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 334406011201 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 334406011202 active site 334406011203 homodimer interface [polypeptide binding]; other site 334406011204 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 334406011205 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 334406011206 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 334406011207 substrate binding pocket [chemical binding]; other site 334406011208 dimer interface [polypeptide binding]; other site 334406011209 inhibitor binding site; inhibition site 334406011210 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 334406011211 B12 binding site [chemical binding]; other site 334406011212 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 334406011213 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 334406011214 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 334406011215 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 334406011216 FAD binding site [chemical binding]; other site 334406011217 cystathionine gamma-synthase; Reviewed; Region: PRK08247 334406011218 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 334406011219 homodimer interface [polypeptide binding]; other site 334406011220 substrate-cofactor binding pocket; other site 334406011221 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406011222 catalytic residue [active] 334406011223 cystathionine beta-lyase; Provisional; Region: PRK08064 334406011224 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 334406011225 homodimer interface [polypeptide binding]; other site 334406011226 substrate-cofactor binding pocket; other site 334406011227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406011228 catalytic residue [active] 334406011229 Isochorismatase family; Region: Isochorismatase; pfam00857 334406011230 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 334406011231 catalytic triad [active] 334406011232 conserved cis-peptide bond; other site 334406011233 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406011234 dimerization interface [polypeptide binding]; other site 334406011235 putative DNA binding site [nucleotide binding]; other site 334406011236 putative Zn2+ binding site [ion binding]; other site 334406011237 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 334406011238 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 334406011239 Protein of unknown function (DUF2759); Region: DUF2759; pfam10958 334406011240 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 334406011241 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 334406011242 nucleotide binding site [chemical binding]; other site 334406011243 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 334406011244 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 334406011245 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 334406011246 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 334406011247 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 334406011248 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 334406011249 active site 334406011250 Substrate binding site; other site 334406011251 Mg++ binding site; other site 334406011252 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 334406011253 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 334406011254 active site 334406011255 metal binding site [ion binding]; metal-binding site 334406011256 substrate binding site [chemical binding]; other site 334406011257 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 334406011258 PhoU domain; Region: PhoU; pfam01895 334406011259 PhoU domain; Region: PhoU; pfam01895 334406011260 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 334406011261 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 334406011262 Walker A/P-loop; other site 334406011263 ATP binding site [chemical binding]; other site 334406011264 Q-loop/lid; other site 334406011265 ABC transporter signature motif; other site 334406011266 Walker B; other site 334406011267 D-loop; other site 334406011268 H-loop/switch region; other site 334406011269 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 334406011270 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406011271 dimer interface [polypeptide binding]; other site 334406011272 conserved gate region; other site 334406011273 putative PBP binding loops; other site 334406011274 ABC-ATPase subunit interface; other site 334406011275 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 334406011276 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406011277 dimer interface [polypeptide binding]; other site 334406011278 conserved gate region; other site 334406011279 putative PBP binding loops; other site 334406011280 ABC-ATPase subunit interface; other site 334406011281 PBP superfamily domain; Region: PBP_like_2; cl17296 334406011282 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 334406011283 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334406011284 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334406011285 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406011286 putative substrate translocation pore; other site 334406011287 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406011288 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 334406011289 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 334406011290 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 334406011291 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 334406011292 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 334406011293 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 334406011294 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 334406011295 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 334406011296 metal binding site 2 [ion binding]; metal-binding site 334406011297 putative DNA binding helix; other site 334406011298 metal binding site 1 [ion binding]; metal-binding site 334406011299 dimer interface [polypeptide binding]; other site 334406011300 structural Zn2+ binding site [ion binding]; other site 334406011301 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 334406011302 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406011303 ABC-ATPase subunit interface; other site 334406011304 dimer interface [polypeptide binding]; other site 334406011305 putative PBP binding regions; other site 334406011306 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 334406011307 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 334406011308 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334406011309 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406011310 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 334406011311 Protein of unknown function (DUF2624); Region: DUF2624; pfam11116 334406011312 endonuclease IV; Provisional; Region: PRK01060 334406011313 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 334406011314 AP (apurinic/apyrimidinic) site pocket; other site 334406011315 DNA interaction; other site 334406011316 Metal-binding active site; metal-binding site 334406011317 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 334406011318 DEAD-like helicases superfamily; Region: DEXDc; smart00487 334406011319 ATP binding site [chemical binding]; other site 334406011320 Mg++ binding site [ion binding]; other site 334406011321 motif III; other site 334406011322 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406011323 nucleotide binding region [chemical binding]; other site 334406011324 ATP-binding site [chemical binding]; other site 334406011325 YqfQ-like protein; Region: YqfQ; pfam14181 334406011326 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 334406011327 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 334406011328 Uncharacterized conserved protein [Function unknown]; Region: COG0327 334406011329 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 334406011330 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 334406011331 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 334406011332 Uncharacterized conserved protein [Function unknown]; Region: COG0327 334406011333 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 334406011334 Family of unknown function (DUF633); Region: DUF633; pfam04816 334406011335 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 334406011336 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 334406011337 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 334406011338 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 334406011339 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 334406011340 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406011341 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 334406011342 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406011343 DNA binding residues [nucleotide binding] 334406011344 DNA primase; Validated; Region: dnaG; PRK05667 334406011345 CHC2 zinc finger; Region: zf-CHC2; pfam01807 334406011346 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 334406011347 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 334406011348 active site 334406011349 metal binding site [ion binding]; metal-binding site 334406011350 interdomain interaction site; other site 334406011351 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 334406011352 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 334406011353 PEP synthetase regulatory protein; Provisional; Region: PRK05339 334406011354 HTH domain; Region: HTH_11; pfam08279 334406011355 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_4; cd04617 334406011356 FOG: CBS domain [General function prediction only]; Region: COG0517 334406011357 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 334406011358 Recombination protein O N terminal; Region: RecO_N; pfam11967 334406011359 Recombination protein O C terminal; Region: RecO_C; pfam02565 334406011360 YqzL-like protein; Region: YqzL; pfam14006 334406011361 GTPase Era; Reviewed; Region: era; PRK00089 334406011362 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 334406011363 G1 box; other site 334406011364 GTP/Mg2+ binding site [chemical binding]; other site 334406011365 Switch I region; other site 334406011366 G2 box; other site 334406011367 Switch II region; other site 334406011368 G3 box; other site 334406011369 G4 box; other site 334406011370 G5 box; other site 334406011371 KH domain; Region: KH_2; pfam07650 334406011372 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 334406011373 active site 334406011374 catalytic motif [active] 334406011375 Zn binding site [ion binding]; other site 334406011376 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 334406011377 metal-binding heat shock protein; Provisional; Region: PRK00016 334406011378 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 334406011379 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 334406011380 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334406011381 Zn2+ binding site [ion binding]; other site 334406011382 Mg2+ binding site [ion binding]; other site 334406011383 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 334406011384 PhoH-like protein; Region: PhoH; pfam02562 334406011385 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 334406011386 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 334406011387 sporulation protein YqfC; Region: spore_yqfC; TIGR02856 334406011388 Yqey-like protein; Region: YqeY; pfam09424 334406011389 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 334406011390 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 334406011391 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 334406011392 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406011393 FeS/SAM binding site; other site 334406011394 TRAM domain; Region: TRAM; cl01282 334406011395 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 334406011396 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 334406011397 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406011398 S-adenosylmethionine binding site [chemical binding]; other site 334406011399 chaperone protein DnaJ; Provisional; Region: PRK14280 334406011400 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 334406011401 HSP70 interaction site [polypeptide binding]; other site 334406011402 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 334406011403 substrate binding site [polypeptide binding]; other site 334406011404 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 334406011405 Zn binding sites [ion binding]; other site 334406011406 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 334406011407 dimer interface [polypeptide binding]; other site 334406011408 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 334406011409 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 334406011410 nucleotide binding site [chemical binding]; other site 334406011411 NEF interaction site [polypeptide binding]; other site 334406011412 SBD interface [polypeptide binding]; other site 334406011413 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 334406011414 GrpE; Region: GrpE; pfam01025 334406011415 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 334406011416 dimer interface [polypeptide binding]; other site 334406011417 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 334406011418 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 334406011419 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 334406011420 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 334406011421 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406011422 FeS/SAM binding site; other site 334406011423 HemN C-terminal domain; Region: HemN_C; pfam06969 334406011424 Predicted transcriptional regulators [Transcription]; Region: COG1733 334406011425 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 334406011426 GTP-binding protein LepA; Provisional; Region: PRK05433 334406011427 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 334406011428 G1 box; other site 334406011429 putative GEF interaction site [polypeptide binding]; other site 334406011430 GTP/Mg2+ binding site [chemical binding]; other site 334406011431 Switch I region; other site 334406011432 G2 box; other site 334406011433 G3 box; other site 334406011434 Switch II region; other site 334406011435 G4 box; other site 334406011436 G5 box; other site 334406011437 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 334406011438 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 334406011439 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 334406011440 Protein of unknown function (DUF3679); Region: DUF3679; pfam12438 334406011441 germination protease; Provisional; Region: PRK02858 334406011442 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 334406011443 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 334406011444 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 334406011445 YqzM-like protein; Region: YqzM; pfam14141 334406011446 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 334406011447 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 334406011448 Competence protein; Region: Competence; pfam03772 334406011449 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406011450 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 334406011451 catalytic motif [active] 334406011452 Zn binding site [ion binding]; other site 334406011453 SLBB domain; Region: SLBB; pfam10531 334406011454 comEA protein; Region: comE; TIGR01259 334406011455 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 334406011456 late competence protein ComER; Validated; Region: PRK07680 334406011457 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 334406011458 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 334406011459 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406011460 S-adenosylmethionine binding site [chemical binding]; other site 334406011461 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 334406011462 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334406011463 Zn2+ binding site [ion binding]; other site 334406011464 Mg2+ binding site [ion binding]; other site 334406011465 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 334406011466 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 334406011467 active site 334406011468 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 334406011469 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 334406011470 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 334406011471 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 334406011472 shikimate binding site; other site 334406011473 NAD(P) binding site [chemical binding]; other site 334406011474 GTPase YqeH; Provisional; Region: PRK13796 334406011475 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 334406011476 GTP/Mg2+ binding site [chemical binding]; other site 334406011477 G4 box; other site 334406011478 G5 box; other site 334406011479 G1 box; other site 334406011480 Switch I region; other site 334406011481 G2 box; other site 334406011482 G3 box; other site 334406011483 Switch II region; other site 334406011484 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 334406011485 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406011486 active site 334406011487 motif I; other site 334406011488 motif II; other site 334406011489 Sporulation inhibitor A; Region: Sda; pfam08970 334406011490 phosphatidylserine decarboxylase; Provisional; Region: PRK03140 334406011491 sporulation sigma factor SigK; Reviewed; Region: PRK05803 334406011492 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406011493 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406011494 DNA binding residues [nucleotide binding] 334406011495 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 334406011496 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 334406011497 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 334406011498 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 334406011499 synthetase active site [active] 334406011500 NTP binding site [chemical binding]; other site 334406011501 metal binding site [ion binding]; metal-binding site 334406011502 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 334406011503 dimer interface [polypeptide binding]; other site 334406011504 Alkaline phosphatase homologues; Region: alkPPc; smart00098 334406011505 active site 334406011506 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406011507 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 334406011508 Coenzyme A binding pocket [chemical binding]; other site 334406011509 PGAP1-like protein; Region: PGAP1; pfam07819 334406011510 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334406011511 DoxX; Region: DoxX; cl17842 334406011512 CHAT domain; Region: CHAT; cl17868 334406011513 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 334406011514 catalytic core [active] 334406011515 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 334406011516 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 334406011517 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 334406011518 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 334406011519 putative active site [active] 334406011520 catalytic triad [active] 334406011521 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 334406011522 putative integrin binding motif; other site 334406011523 PA/protease domain interface [polypeptide binding]; other site 334406011524 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 334406011525 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 334406011526 phenylalanine 4-monooxygenase; Provisional; Region: PRK14056 334406011527 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cd00361 334406011528 cofactor binding site; other site 334406011529 metal binding site [ion binding]; metal-binding site 334406011530 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 334406011531 aromatic arch; other site 334406011532 DCoH dimer interaction site [polypeptide binding]; other site 334406011533 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 334406011534 DCoH tetramer interaction site [polypeptide binding]; other site 334406011535 substrate binding site [chemical binding]; other site 334406011536 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 334406011537 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 334406011538 putative metal binding site [ion binding]; other site 334406011539 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 334406011540 active site 334406011541 metal binding site [ion binding]; metal-binding site 334406011542 Predicted membrane protein [Function unknown]; Region: COG2259 334406011543 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 334406011544 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406011545 non-specific DNA binding site [nucleotide binding]; other site 334406011546 salt bridge; other site 334406011547 sequence-specific DNA binding site [nucleotide binding]; other site 334406011548 Cupin domain; Region: Cupin_2; pfam07883 334406011549 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 334406011550 active site 2 [active] 334406011551 active site 1 [active] 334406011552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406011553 Coenzyme A binding pocket [chemical binding]; other site 334406011554 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406011555 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334406011556 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 334406011557 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 334406011558 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 334406011559 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 334406011560 Walker A/P-loop; other site 334406011561 ATP binding site [chemical binding]; other site 334406011562 Q-loop/lid; other site 334406011563 ABC transporter signature motif; other site 334406011564 Walker B; other site 334406011565 D-loop; other site 334406011566 H-loop/switch region; other site 334406011567 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 334406011568 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406011569 ABC-ATPase subunit interface; other site 334406011570 dimer interface [polypeptide binding]; other site 334406011571 putative PBP binding regions; other site 334406011572 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 334406011573 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 334406011574 intersubunit interface [polypeptide binding]; other site 334406011575 YrhC-like protein; Region: YrhC; pfam14143 334406011576 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 334406011577 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 334406011578 putative catalytic cysteine [active] 334406011579 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 334406011580 putative active site [active] 334406011581 metal binding site [ion binding]; metal-binding site 334406011582 cystathionine beta-lyase; Provisional; Region: PRK07671 334406011583 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 334406011584 homodimer interface [polypeptide binding]; other site 334406011585 substrate-cofactor binding pocket; other site 334406011586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406011587 catalytic residue [active] 334406011588 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 334406011589 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 334406011590 dimer interface [polypeptide binding]; other site 334406011591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406011592 catalytic residue [active] 334406011593 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 334406011594 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 334406011595 Methyltransferase domain; Region: Methyltransf_23; pfam13489 334406011596 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406011597 S-adenosylmethionine binding site [chemical binding]; other site 334406011598 Protein of unknown function (DUF2536); Region: DUF2536; pfam10750 334406011599 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 334406011600 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 334406011601 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334406011602 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334406011603 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 334406011604 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 334406011605 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 334406011606 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 334406011607 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 334406011608 ATP-binding site [chemical binding]; other site 334406011609 Sugar specificity; other site 334406011610 Pyrimidine base specificity; other site 334406011611 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 334406011612 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 334406011613 Peptidase family U32; Region: Peptidase_U32; pfam01136 334406011614 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 334406011615 Peptidase family U32; Region: Peptidase_U32; pfam01136 334406011616 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 334406011617 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406011618 S-adenosylmethionine binding site [chemical binding]; other site 334406011619 YceG-like family; Region: YceG; pfam02618 334406011620 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 334406011621 dimerization interface [polypeptide binding]; other site 334406011622 hypothetical protein; Provisional; Region: PRK13678 334406011623 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 334406011624 hypothetical protein; Provisional; Region: PRK05473 334406011625 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 334406011626 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 334406011627 motif 1; other site 334406011628 active site 334406011629 motif 2; other site 334406011630 motif 3; other site 334406011631 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 334406011632 DHHA1 domain; Region: DHHA1; pfam02272 334406011633 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 334406011634 Domain of unknown function DUF20; Region: UPF0118; pfam01594 334406011635 Protein of unknown function (DUF3918); Region: DUF3918; pfam13056 334406011636 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 334406011637 AAA domain; Region: AAA_30; pfam13604 334406011638 Family description; Region: UvrD_C_2; pfam13538 334406011639 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406011640 TPR motif; other site 334406011641 TPR repeat; Region: TPR_11; pfam13414 334406011642 binding surface 334406011643 TPR repeat; Region: TPR_11; pfam13414 334406011644 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406011645 binding surface 334406011646 TPR motif; other site 334406011647 TPR repeat; Region: TPR_11; pfam13414 334406011648 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 334406011649 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 334406011650 Ligand Binding Site [chemical binding]; other site 334406011651 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 334406011652 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 334406011653 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334406011654 catalytic residue [active] 334406011655 Predicted transcriptional regulator [Transcription]; Region: COG1959 334406011656 Transcriptional regulator; Region: Rrf2; pfam02082 334406011657 recombination factor protein RarA; Reviewed; Region: PRK13342 334406011658 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406011659 Walker A motif; other site 334406011660 ATP binding site [chemical binding]; other site 334406011661 Walker B motif; other site 334406011662 arginine finger; other site 334406011663 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 334406011664 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 334406011665 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 334406011666 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 334406011667 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 334406011668 putative ATP binding site [chemical binding]; other site 334406011669 putative substrate interface [chemical binding]; other site 334406011670 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 334406011671 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 334406011672 dimer interface [polypeptide binding]; other site 334406011673 anticodon binding site; other site 334406011674 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 334406011675 homodimer interface [polypeptide binding]; other site 334406011676 motif 1; other site 334406011677 active site 334406011678 motif 2; other site 334406011679 GAD domain; Region: GAD; pfam02938 334406011680 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 334406011681 motif 3; other site 334406011682 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 334406011683 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 334406011684 dimer interface [polypeptide binding]; other site 334406011685 motif 1; other site 334406011686 active site 334406011687 motif 2; other site 334406011688 motif 3; other site 334406011689 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 334406011690 anticodon binding site; other site 334406011691 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334406011692 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 334406011693 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 334406011694 putative active site [active] 334406011695 dimerization interface [polypeptide binding]; other site 334406011696 putative tRNAtyr binding site [nucleotide binding]; other site 334406011697 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 334406011698 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334406011699 Zn2+ binding site [ion binding]; other site 334406011700 Mg2+ binding site [ion binding]; other site 334406011701 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 334406011702 synthetase active site [active] 334406011703 NTP binding site [chemical binding]; other site 334406011704 metal binding site [ion binding]; metal-binding site 334406011705 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 334406011706 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 334406011707 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334406011708 active site 334406011709 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 334406011710 DHH family; Region: DHH; pfam01368 334406011711 DHHA1 domain; Region: DHHA1; pfam02272 334406011712 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; pfam10141 334406011713 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 334406011714 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 334406011715 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 334406011716 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 334406011717 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 334406011718 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 334406011719 Protein export membrane protein; Region: SecD_SecF; pfam02355 334406011720 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 334406011721 stage V sporulation protein B; Region: spore_V_B; TIGR02900 334406011722 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 334406011723 Predicted membrane protein [Function unknown]; Region: COG2323 334406011724 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 334406011725 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 334406011726 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 334406011727 Queuine tRNA-ribosyltransferase; Region: TGT; pfam01702 334406011728 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 334406011729 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 334406011730 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 334406011731 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 334406011732 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 334406011733 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 334406011734 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406011735 Walker A motif; other site 334406011736 ATP binding site [chemical binding]; other site 334406011737 Walker B motif; other site 334406011738 arginine finger; other site 334406011739 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 334406011740 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 334406011741 RuvA N terminal domain; Region: RuvA_N; pfam01330 334406011742 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 334406011743 Bypass of Forespore C, N terminal; Region: BOFC_N; pfam08977 334406011744 BofC C-terminal domain; Region: BofC_C; pfam08955 334406011745 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 334406011746 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334406011747 quinolinate synthetase; Provisional; Region: PRK09375 334406011748 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK08072 334406011749 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 334406011750 dimerization interface [polypeptide binding]; other site 334406011751 active site 334406011752 L-aspartate oxidase; Provisional; Region: PRK08071 334406011753 L-aspartate oxidase; Provisional; Region: PRK06175 334406011754 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 334406011755 cysteine desulfurase; Provisional; Region: PRK02948 334406011756 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 334406011757 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334406011758 catalytic residue [active] 334406011759 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 334406011760 HTH domain; Region: HTH_11; pfam08279 334406011761 3H domain; Region: 3H; pfam02829 334406011762 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 334406011763 MOSC domain; Region: MOSC; pfam03473 334406011764 3-alpha domain; Region: 3-alpha; pfam03475 334406011765 prephenate dehydratase; Provisional; Region: PRK11898 334406011766 Prephenate dehydratase; Region: PDT; pfam00800 334406011767 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 334406011768 putative L-Phe binding site [chemical binding]; other site 334406011769 FtsX-like permease family; Region: FtsX; pfam02687 334406011770 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334406011771 FtsX-like permease family; Region: FtsX; pfam02687 334406011772 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334406011773 FtsX-like permease family; Region: FtsX; pfam02687 334406011774 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406011775 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406011776 Walker A/P-loop; other site 334406011777 ATP binding site [chemical binding]; other site 334406011778 Q-loop/lid; other site 334406011779 ABC transporter signature motif; other site 334406011780 Walker B; other site 334406011781 D-loop; other site 334406011782 H-loop/switch region; other site 334406011783 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406011784 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 334406011785 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406011786 ATP binding site [chemical binding]; other site 334406011787 Mg2+ binding site [ion binding]; other site 334406011788 G-X-G motif; other site 334406011789 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406011790 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406011791 active site 334406011792 phosphorylation site [posttranslational modification] 334406011793 intermolecular recognition site; other site 334406011794 dimerization interface [polypeptide binding]; other site 334406011795 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406011796 DNA binding site [nucleotide binding] 334406011797 GTPase CgtA; Reviewed; Region: obgE; PRK12297 334406011798 GTP1/OBG; Region: GTP1_OBG; pfam01018 334406011799 Obg GTPase; Region: Obg; cd01898 334406011800 G1 box; other site 334406011801 GTP/Mg2+ binding site [chemical binding]; other site 334406011802 Switch I region; other site 334406011803 G2 box; other site 334406011804 G3 box; other site 334406011805 Switch II region; other site 334406011806 G4 box; other site 334406011807 G5 box; other site 334406011808 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 334406011809 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 334406011810 hypothetical protein; Provisional; Region: PRK14553 334406011811 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 334406011812 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 334406011813 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 334406011814 homodimer interface [polypeptide binding]; other site 334406011815 oligonucleotide binding site [chemical binding]; other site 334406011816 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 334406011817 Peptidase family M50; Region: Peptidase_M50; pfam02163 334406011818 active site 334406011819 putative substrate binding region [chemical binding]; other site 334406011820 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 334406011821 Peptidase family M23; Region: Peptidase_M23; pfam01551 334406011822 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 334406011823 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 334406011824 Switch I; other site 334406011825 Switch II; other site 334406011826 septum formation inhibitor; Reviewed; Region: minC; PRK00513 334406011827 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 334406011828 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 334406011829 rod shape-determining protein MreC; Provisional; Region: PRK13922 334406011830 rod shape-determining protein MreC; Region: MreC; pfam04085 334406011831 rod shape-determining protein MreB; Provisional; Region: PRK13927 334406011832 MreB and similar proteins; Region: MreB_like; cd10225 334406011833 nucleotide binding site [chemical binding]; other site 334406011834 Mg binding site [ion binding]; other site 334406011835 putative protofilament interaction site [polypeptide binding]; other site 334406011836 RodZ interaction site [polypeptide binding]; other site 334406011837 hypothetical protein; Reviewed; Region: PRK00024 334406011838 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 334406011839 MPN+ (JAMM) motif; other site 334406011840 Zinc-binding site [ion binding]; other site 334406011841 Maf-like protein; Region: Maf; pfam02545 334406011842 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 334406011843 active site 334406011844 dimer interface [polypeptide binding]; other site 334406011845 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 334406011846 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334406011847 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334406011848 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 334406011849 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 334406011850 active site 334406011851 HIGH motif; other site 334406011852 nucleotide binding site [chemical binding]; other site 334406011853 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 334406011854 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 334406011855 active site 334406011856 KMSKS motif; other site 334406011857 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 334406011858 tRNA binding surface [nucleotide binding]; other site 334406011859 anticodon binding site; other site 334406011860 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 334406011861 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 334406011862 stage VI sporulation protein D; Region: spore_VI_D; TIGR02907 334406011863 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 334406011864 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 334406011865 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 334406011866 inhibitor-cofactor binding pocket; inhibition site 334406011867 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406011868 catalytic residue [active] 334406011869 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 334406011870 dimer interface [polypeptide binding]; other site 334406011871 active site 334406011872 Schiff base residues; other site 334406011873 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 334406011874 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 334406011875 active site 334406011876 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 334406011877 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 334406011878 domain interfaces; other site 334406011879 active site 334406011880 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 334406011881 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 334406011882 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 334406011883 tRNA; other site 334406011884 putative tRNA binding site [nucleotide binding]; other site 334406011885 putative NADP binding site [chemical binding]; other site 334406011886 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 334406011887 Transcriptional regulators [Transcription]; Region: MarR; COG1846 334406011888 MarR family; Region: MarR; pfam01047 334406011889 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 334406011890 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 334406011891 G1 box; other site 334406011892 GTP/Mg2+ binding site [chemical binding]; other site 334406011893 Switch I region; other site 334406011894 G2 box; other site 334406011895 G3 box; other site 334406011896 Switch II region; other site 334406011897 G4 box; other site 334406011898 G5 box; other site 334406011899 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 334406011900 Found in ATP-dependent protease La (LON); Region: LON; smart00464 334406011901 Found in ATP-dependent protease La (LON); Region: LON; smart00464 334406011902 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406011903 Walker A motif; other site 334406011904 ATP binding site [chemical binding]; other site 334406011905 Walker B motif; other site 334406011906 arginine finger; other site 334406011907 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 334406011908 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 334406011909 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406011910 Walker A motif; other site 334406011911 ATP binding site [chemical binding]; other site 334406011912 Walker B motif; other site 334406011913 arginine finger; other site 334406011914 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 334406011915 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 334406011916 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 334406011917 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406011918 Walker A motif; other site 334406011919 ATP binding site [chemical binding]; other site 334406011920 Walker B motif; other site 334406011921 arginine finger; other site 334406011922 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 334406011923 trigger factor; Provisional; Region: tig; PRK01490 334406011924 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 334406011925 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 334406011926 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 334406011927 pentamer interface [polypeptide binding]; other site 334406011928 dodecaamer interface [polypeptide binding]; other site 334406011929 YvbH-like oligomerisation region; Region: YvbH_ext; pfam11724 334406011930 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 334406011931 active site 334406011932 metal binding site [ion binding]; metal-binding site 334406011933 homotetramer interface [polypeptide binding]; other site 334406011934 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 334406011935 active site 334406011936 dimerization interface [polypeptide binding]; other site 334406011937 ribonuclease PH; Reviewed; Region: rph; PRK00173 334406011938 Ribonuclease PH; Region: RNase_PH_bact; cd11362 334406011939 hexamer interface [polypeptide binding]; other site 334406011940 active site 334406011941 Sporulation and spore germination; Region: Germane; pfam10646 334406011942 Spore germination protein [General function prediction only]; Region: COG5401 334406011943 Sporulation and spore germination; Region: Germane; pfam10646 334406011944 glutamate racemase; Provisional; Region: PRK00865 334406011945 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406011946 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406011947 putative substrate translocation pore; other site 334406011948 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406011949 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 334406011950 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 334406011951 potential catalytic triad [active] 334406011952 conserved cys residue [active] 334406011953 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406011954 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406011955 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 334406011956 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 334406011957 potential catalytic triad [active] 334406011958 conserved cys residue [active] 334406011959 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 334406011960 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 334406011961 DNA binding residues [nucleotide binding] 334406011962 dimerization interface [polypeptide binding]; other site 334406011963 putative uracil/xanthine transporter; Provisional; Region: PRK11412 334406011964 putative deaminase; Validated; Region: PRK06846 334406011965 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 334406011966 active site 334406011967 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 334406011968 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 334406011969 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406011970 non-specific DNA binding site [nucleotide binding]; other site 334406011971 salt bridge; other site 334406011972 sequence-specific DNA binding site [nucleotide binding]; other site 334406011973 Cupin domain; Region: Cupin_2; pfam07883 334406011974 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 334406011975 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 334406011976 amphipathic channel; other site 334406011977 Asn-Pro-Ala signature motifs; other site 334406011978 Predicted transcriptional regulator [Transcription]; Region: COG1959 334406011979 Transcriptional regulator; Region: Rrf2; pfam02082 334406011980 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 334406011981 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 334406011982 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406011983 Walker A/P-loop; other site 334406011984 ATP binding site [chemical binding]; other site 334406011985 Q-loop/lid; other site 334406011986 ABC transporter signature motif; other site 334406011987 Walker B; other site 334406011988 D-loop; other site 334406011989 H-loop/switch region; other site 334406011990 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 334406011991 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406011992 active site 334406011993 motif I; other site 334406011994 motif II; other site 334406011995 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 334406011996 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 334406011997 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 334406011998 ligand binding site [chemical binding]; other site 334406011999 flagellar motor protein MotA; Validated; Region: PRK08124 334406012000 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 334406012001 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 334406012002 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 334406012003 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 334406012004 active site 334406012005 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 334406012006 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 334406012007 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 334406012008 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 334406012009 L-aspartate oxidase; Provisional; Region: PRK06175 334406012010 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 334406012011 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 334406012012 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 334406012013 putative Iron-sulfur protein interface [polypeptide binding]; other site 334406012014 proximal heme binding site [chemical binding]; other site 334406012015 distal heme binding site [chemical binding]; other site 334406012016 putative dimer interface [polypeptide binding]; other site 334406012017 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 334406012018 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 334406012019 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 334406012020 GIY-YIG motif/motif A; other site 334406012021 active site 334406012022 catalytic site [active] 334406012023 putative DNA binding site [nucleotide binding]; other site 334406012024 metal binding site [ion binding]; metal-binding site 334406012025 UvrB/uvrC motif; Region: UVR; pfam02151 334406012026 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 334406012027 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 334406012028 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 334406012029 catalytic residues [active] 334406012030 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 334406012031 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 334406012032 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 334406012033 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 334406012034 Ligand binding site [chemical binding]; other site 334406012035 Electron transfer flavoprotein domain; Region: ETF; pfam01012 334406012036 enoyl-CoA hydratase; Provisional; Region: PRK07658 334406012037 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 334406012038 substrate binding site [chemical binding]; other site 334406012039 oxyanion hole (OAH) forming residues; other site 334406012040 trimer interface [polypeptide binding]; other site 334406012041 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 334406012042 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406012043 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406012044 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 334406012045 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 334406012046 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 334406012047 acyl-activating enzyme (AAE) consensus motif; other site 334406012048 putative AMP binding site [chemical binding]; other site 334406012049 putative active site [active] 334406012050 putative CoA binding site [chemical binding]; other site 334406012051 DinB family; Region: DinB; pfam05163 334406012052 DinB superfamily; Region: DinB_2; pfam12867 334406012053 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 334406012054 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 334406012055 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 334406012056 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334406012057 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 334406012058 Walker A/P-loop; other site 334406012059 ATP binding site [chemical binding]; other site 334406012060 Q-loop/lid; other site 334406012061 ABC transporter signature motif; other site 334406012062 Walker B; other site 334406012063 D-loop; other site 334406012064 H-loop/switch region; other site 334406012065 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406012066 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406012067 dimer interface [polypeptide binding]; other site 334406012068 phosphorylation site [posttranslational modification] 334406012069 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406012070 ATP binding site [chemical binding]; other site 334406012071 Mg2+ binding site [ion binding]; other site 334406012072 G-X-G motif; other site 334406012073 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406012074 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406012075 active site 334406012076 phosphorylation site [posttranslational modification] 334406012077 intermolecular recognition site; other site 334406012078 dimerization interface [polypeptide binding]; other site 334406012079 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406012080 DNA binding site [nucleotide binding] 334406012081 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 334406012082 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 334406012083 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 334406012084 putative RNA binding site [nucleotide binding]; other site 334406012085 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 334406012086 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 334406012087 TrkA-N domain; Region: TrkA_N; pfam02254 334406012088 heme-degrading monooxygenase IsdG; Provisional; Region: PRK13314 334406012089 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 334406012090 active site 334406012091 catalytic site [active] 334406012092 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 334406012093 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 334406012094 Walker A/P-loop; other site 334406012095 ATP binding site [chemical binding]; other site 334406012096 Q-loop/lid; other site 334406012097 ABC transporter signature motif; other site 334406012098 Walker B; other site 334406012099 D-loop; other site 334406012100 H-loop/switch region; other site 334406012101 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 334406012102 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406012103 ABC-ATPase subunit interface; other site 334406012104 dimer interface [polypeptide binding]; other site 334406012105 putative PBP binding regions; other site 334406012106 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 334406012107 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 334406012108 intersubunit interface [polypeptide binding]; other site 334406012109 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334406012110 heme-binding site [chemical binding]; other site 334406012111 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334406012112 heme-binding site [chemical binding]; other site 334406012113 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334406012114 heme-binding site [chemical binding]; other site 334406012115 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334406012116 heme-binding site [chemical binding]; other site 334406012117 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334406012118 heme-binding site [chemical binding]; other site 334406012119 heme uptake protein IsdC; Region: IsdC; TIGR03656 334406012120 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 334406012121 heme-binding site [chemical binding]; other site 334406012122 sortase B cell surface sorting signal; Region: srtB_target; TIGR03063 334406012123 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 334406012124 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 334406012125 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 334406012126 RNA binding surface [nucleotide binding]; other site 334406012127 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 334406012128 probable active site [active] 334406012129 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 334406012130 MutS domain III; Region: MutS_III; pfam05192 334406012131 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 334406012132 Walker A/P-loop; other site 334406012133 ATP binding site [chemical binding]; other site 334406012134 Q-loop/lid; other site 334406012135 ABC transporter signature motif; other site 334406012136 Walker B; other site 334406012137 D-loop; other site 334406012138 H-loop/switch region; other site 334406012139 Smr domain; Region: Smr; pfam01713 334406012140 hypothetical protein; Provisional; Region: PRK08609 334406012141 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 334406012142 active site 334406012143 primer binding site [nucleotide binding]; other site 334406012144 NTP binding site [chemical binding]; other site 334406012145 metal binding triad [ion binding]; metal-binding site 334406012146 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 334406012147 active site 334406012148 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 334406012149 Colicin V production protein; Region: Colicin_V; pfam02674 334406012150 cell division protein ZapA; Provisional; Region: PRK14126 334406012151 ribonuclease HIII; Provisional; Region: PRK00996 334406012152 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 334406012153 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 334406012154 RNA/DNA hybrid binding site [nucleotide binding]; other site 334406012155 active site 334406012156 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 334406012157 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 334406012158 putative dimer interface [polypeptide binding]; other site 334406012159 putative anticodon binding site; other site 334406012160 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 334406012161 homodimer interface [polypeptide binding]; other site 334406012162 motif 1; other site 334406012163 motif 2; other site 334406012164 active site 334406012165 motif 3; other site 334406012166 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 334406012167 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 334406012168 putative tRNA-binding site [nucleotide binding]; other site 334406012169 B3/4 domain; Region: B3_4; pfam03483 334406012170 tRNA synthetase B5 domain; Region: B5; smart00874 334406012171 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 334406012172 dimer interface [polypeptide binding]; other site 334406012173 motif 1; other site 334406012174 motif 3; other site 334406012175 motif 2; other site 334406012176 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 334406012177 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 334406012178 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 334406012179 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 334406012180 dimer interface [polypeptide binding]; other site 334406012181 motif 1; other site 334406012182 active site 334406012183 motif 2; other site 334406012184 motif 3; other site 334406012185 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 334406012186 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 334406012187 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 334406012188 small acid-soluble spore protein SspI; Provisional; Region: PRK02955 334406012189 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334406012190 Zn2+ binding site [ion binding]; other site 334406012191 Mg2+ binding site [ion binding]; other site 334406012192 CAAX protease self-immunity; Region: Abi; pfam02517 334406012193 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 334406012194 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406012195 putative substrate translocation pore; other site 334406012196 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406012197 HlyD family secretion protein; Region: HlyD_3; pfam13437 334406012198 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406012199 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406012200 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 334406012201 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 334406012202 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 334406012203 oligomer interface [polypeptide binding]; other site 334406012204 active site 334406012205 metal binding site [ion binding]; metal-binding site 334406012206 dUTPase; Region: dUTPase_2; pfam08761 334406012207 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 334406012208 active site 334406012209 homodimer interface [polypeptide binding]; other site 334406012210 metal binding site [ion binding]; metal-binding site 334406012211 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 334406012212 23S rRNA binding site [nucleotide binding]; other site 334406012213 L21 binding site [polypeptide binding]; other site 334406012214 L13 binding site [polypeptide binding]; other site 334406012215 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 334406012216 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 334406012217 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 334406012218 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 334406012219 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 334406012220 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 334406012221 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 334406012222 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 334406012223 active site 334406012224 dimer interface [polypeptide binding]; other site 334406012225 motif 1; other site 334406012226 motif 2; other site 334406012227 motif 3; other site 334406012228 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 334406012229 anticodon binding site; other site 334406012230 putative sporulation protein YtxC; Region: spo_ytxC; TIGR02834 334406012231 primosomal protein DnaI; Reviewed; Region: PRK08939 334406012232 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 334406012233 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406012234 Walker A motif; other site 334406012235 ATP binding site [chemical binding]; other site 334406012236 Walker B motif; other site 334406012237 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 334406012238 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 334406012239 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 334406012240 ATP cone domain; Region: ATP-cone; pfam03477 334406012241 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 334406012242 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 334406012243 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 334406012244 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 334406012245 dephospho-CoA kinase; Region: TIGR00152 334406012246 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 334406012247 CoA-binding site [chemical binding]; other site 334406012248 ATP-binding [chemical binding]; other site 334406012249 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 334406012250 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 334406012251 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 334406012252 DNA binding site [nucleotide binding] 334406012253 catalytic residue [active] 334406012254 H2TH interface [polypeptide binding]; other site 334406012255 putative catalytic residues [active] 334406012256 turnover-facilitating residue; other site 334406012257 intercalation triad [nucleotide binding]; other site 334406012258 8OG recognition residue [nucleotide binding]; other site 334406012259 putative reading head residues; other site 334406012260 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 334406012261 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 334406012262 DNA polymerase I; Provisional; Region: PRK05755 334406012263 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 334406012264 active site 334406012265 metal binding site 1 [ion binding]; metal-binding site 334406012266 putative 5' ssDNA interaction site; other site 334406012267 metal binding site 3; metal-binding site 334406012268 metal binding site 2 [ion binding]; metal-binding site 334406012269 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 334406012270 putative DNA binding site [nucleotide binding]; other site 334406012271 putative metal binding site [ion binding]; other site 334406012272 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 334406012273 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 334406012274 active site 334406012275 DNA binding site [nucleotide binding] 334406012276 catalytic site [active] 334406012277 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406012278 dimerization interface [polypeptide binding]; other site 334406012279 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 334406012280 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406012281 putative active site [active] 334406012282 heme pocket [chemical binding]; other site 334406012283 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406012284 dimer interface [polypeptide binding]; other site 334406012285 phosphorylation site [posttranslational modification] 334406012286 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406012287 ATP binding site [chemical binding]; other site 334406012288 Mg2+ binding site [ion binding]; other site 334406012289 G-X-G motif; other site 334406012290 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406012291 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406012292 active site 334406012293 phosphorylation site [posttranslational modification] 334406012294 intermolecular recognition site; other site 334406012295 dimerization interface [polypeptide binding]; other site 334406012296 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406012297 DNA binding site [nucleotide binding] 334406012298 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 334406012299 active site 2 [active] 334406012300 active site 1 [active] 334406012301 malate dehydrogenase; Reviewed; Region: PRK06223 334406012302 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 334406012303 NAD(P) binding site [chemical binding]; other site 334406012304 dimer interface [polypeptide binding]; other site 334406012305 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334406012306 substrate binding site [chemical binding]; other site 334406012307 isocitrate dehydrogenase; Reviewed; Region: PRK07006 334406012308 isocitrate dehydrogenase; Validated; Region: PRK07362 334406012309 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 334406012310 dimer interface [polypeptide binding]; other site 334406012311 Citrate synthase; Region: Citrate_synt; pfam00285 334406012312 active site 334406012313 citrylCoA binding site [chemical binding]; other site 334406012314 oxalacetate/citrate binding site [chemical binding]; other site 334406012315 coenzyme A binding site [chemical binding]; other site 334406012316 catalytic triad [active] 334406012317 Protein of unknown function (DUF441); Region: DUF441; pfam04284 334406012318 sporulation integral membrane protein YtvI; Region: spore_ytvI; TIGR02872 334406012319 Domain of unknown function DUF20; Region: UPF0118; pfam01594 334406012320 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 334406012321 pyruvate kinase; Provisional; Region: PRK06354 334406012322 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 334406012323 domain interfaces; other site 334406012324 active site 334406012325 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 334406012326 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 334406012327 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 334406012328 active site 334406012329 ADP/pyrophosphate binding site [chemical binding]; other site 334406012330 dimerization interface [polypeptide binding]; other site 334406012331 allosteric effector site; other site 334406012332 fructose-1,6-bisphosphate binding site; other site 334406012333 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 334406012334 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 334406012335 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 334406012336 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 334406012337 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 334406012338 Transcriptional regulators [Transcription]; Region: FadR; COG2186 334406012339 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406012340 DNA-binding site [nucleotide binding]; DNA binding site 334406012341 Malic enzyme, N-terminal domain; Region: malic; pfam00390 334406012342 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 334406012343 putative NAD(P) binding site [chemical binding]; other site 334406012344 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06920 334406012345 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 334406012346 active site 334406012347 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 334406012348 generic binding surface II; other site 334406012349 generic binding surface I; other site 334406012350 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 334406012351 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 334406012352 DHH family; Region: DHH; pfam01368 334406012353 DHHA1 domain; Region: DHHA1; pfam02272 334406012354 YtpI-like protein; Region: YtpI; pfam14007 334406012355 Protein of unknown function (DUF3949); Region: DUF3949; pfam13133 334406012356 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 334406012357 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406012358 DNA-binding site [nucleotide binding]; DNA binding site 334406012359 DRTGG domain; Region: DRTGG; pfam07085 334406012360 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 334406012361 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 334406012362 active site 2 [active] 334406012363 active site 1 [active] 334406012364 metal-dependent hydrolase; Provisional; Region: PRK00685 334406012365 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 334406012366 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 334406012367 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 334406012368 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 334406012369 active site 334406012370 Protein of unknown function (DUF3221); Region: DUF3221; pfam11518 334406012371 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 334406012372 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 334406012373 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 334406012374 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406012375 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 334406012376 DNA binding residues [nucleotide binding] 334406012377 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 334406012378 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406012379 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 334406012380 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 334406012381 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 334406012382 hexamer interface [polypeptide binding]; other site 334406012383 ligand binding site [chemical binding]; other site 334406012384 putative active site [active] 334406012385 NAD(P) binding site [chemical binding]; other site 334406012386 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 334406012387 classical (c) SDRs; Region: SDR_c; cd05233 334406012388 NAD(P) binding site [chemical binding]; other site 334406012389 active site 334406012390 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 334406012391 Ligand Binding Site [chemical binding]; other site 334406012392 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406012393 dimerization interface [polypeptide binding]; other site 334406012394 putative DNA binding site [nucleotide binding]; other site 334406012395 putative Zn2+ binding site [ion binding]; other site 334406012396 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406012397 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 334406012398 active site 334406012399 substrate binding site [chemical binding]; other site 334406012400 ATP binding site [chemical binding]; other site 334406012401 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 334406012402 activation loop (A-loop); other site 334406012403 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 334406012404 active site 334406012405 zinc binding site [ion binding]; other site 334406012406 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406012407 argininosuccinate lyase; Provisional; Region: PRK00855 334406012408 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 334406012409 active sites [active] 334406012410 tetramer interface [polypeptide binding]; other site 334406012411 argininosuccinate synthase; Provisional; Region: PRK13820 334406012412 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 334406012413 ANP binding site [chemical binding]; other site 334406012414 Substrate Binding Site II [chemical binding]; other site 334406012415 Substrate Binding Site I [chemical binding]; other site 334406012416 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334406012417 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406012418 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406012419 EcsC protein family; Region: EcsC; pfam12787 334406012420 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 334406012421 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 334406012422 nudix motif; other site 334406012423 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 334406012424 propionate/acetate kinase; Provisional; Region: PRK12379 334406012425 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 334406012426 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406012427 S-adenosylmethionine binding site [chemical binding]; other site 334406012428 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 334406012429 dimer interface [polypeptide binding]; other site 334406012430 catalytic triad [active] 334406012431 peroxidatic and resolving cysteines [active] 334406012432 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 334406012433 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 334406012434 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03501 334406012435 ATP-NAD kinase; Region: NAD_kinase; pfam01513 334406012436 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 334406012437 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 334406012438 active site 334406012439 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406012440 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 334406012441 dimer interface [polypeptide binding]; other site 334406012442 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 334406012443 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 334406012444 active site 334406012445 acyl-activating enzyme (AAE) consensus motif; other site 334406012446 putative CoA binding site [chemical binding]; other site 334406012447 AMP binding site [chemical binding]; other site 334406012448 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 334406012449 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 334406012450 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 334406012451 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 334406012452 Ligand Binding Site [chemical binding]; other site 334406012453 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 334406012454 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 334406012455 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334406012456 catalytic residue [active] 334406012457 septation ring formation regulator EzrA; Provisional; Region: PRK04778 334406012458 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334406012459 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334406012460 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 334406012461 dimerization interface [polypeptide binding]; other site 334406012462 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 334406012463 EamA-like transporter family; Region: EamA; pfam00892 334406012464 EamA-like transporter family; Region: EamA; pfam00892 334406012465 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406012466 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406012467 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 334406012468 GAF domain; Region: GAF_2; pfam13185 334406012469 methionine gamma-lyase; Provisional; Region: PRK06767 334406012470 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 334406012471 homodimer interface [polypeptide binding]; other site 334406012472 substrate-cofactor binding pocket; other site 334406012473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406012474 catalytic residue [active] 334406012475 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 334406012476 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 334406012477 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 334406012478 RNA binding surface [nucleotide binding]; other site 334406012479 Domain of unknown function (DUF4306); Region: DUF4306; pfam14154 334406012480 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 334406012481 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 334406012482 active site 334406012483 HIGH motif; other site 334406012484 dimer interface [polypeptide binding]; other site 334406012485 KMSKS motif; other site 334406012486 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 334406012487 RNA binding surface [nucleotide binding]; other site 334406012488 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 334406012489 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406012490 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406012491 DNA binding residues [nucleotide binding] 334406012492 acetyl-CoA synthetase; Provisional; Region: PRK04319 334406012493 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 334406012494 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 334406012495 active site 334406012496 acyl-activating enzyme (AAE) consensus motif; other site 334406012497 putative CoA binding site [chemical binding]; other site 334406012498 AMP binding site [chemical binding]; other site 334406012499 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406012500 Coenzyme A binding pocket [chemical binding]; other site 334406012501 FOG: CBS domain [General function prediction only]; Region: COG0517 334406012502 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 334406012503 C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB; Region: ACT_AcuB; cd04883 334406012504 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 334406012505 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 334406012506 active site 334406012507 Zn binding site [ion binding]; other site 334406012508 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334406012509 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406012510 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406012511 active site 334406012512 phosphorylation site [posttranslational modification] 334406012513 intermolecular recognition site; other site 334406012514 dimerization interface [polypeptide binding]; other site 334406012515 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406012516 DNA binding site [nucleotide binding] 334406012517 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406012518 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406012519 dimerization interface [polypeptide binding]; other site 334406012520 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406012521 dimer interface [polypeptide binding]; other site 334406012522 phosphorylation site [posttranslational modification] 334406012523 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406012524 ATP binding site [chemical binding]; other site 334406012525 Mg2+ binding site [ion binding]; other site 334406012526 G-X-G motif; other site 334406012527 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 334406012528 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 334406012529 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13955 334406012530 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 334406012531 Protein of unknown function (DUF3917); Region: DUF3917; pfam13055 334406012532 Protein of unknown function (DUF3949); Region: DUF3949; pfam13133 334406012533 Domain of unknown function (DUF4288); Region: DUF4288; pfam14119 334406012534 catabolite control protein A; Region: ccpA; TIGR01481 334406012535 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334406012536 DNA binding site [nucleotide binding] 334406012537 domain linker motif; other site 334406012538 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 334406012539 dimerization interface [polypeptide binding]; other site 334406012540 effector binding site; other site 334406012541 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 334406012542 putative dimer interface [polypeptide binding]; other site 334406012543 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 334406012544 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 334406012545 putative dimer interface [polypeptide binding]; other site 334406012546 Protein of unknown function (DUF2847); Region: DUF2847; pfam11009 334406012547 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 334406012548 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 334406012549 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 334406012550 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 334406012551 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 334406012552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406012553 Coenzyme A binding pocket [chemical binding]; other site 334406012554 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334406012555 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406012556 Coenzyme A binding pocket [chemical binding]; other site 334406012557 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 334406012558 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334406012559 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334406012560 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334406012561 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 334406012562 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup B. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_B; cd01571 334406012563 active site 334406012564 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 334406012565 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 334406012566 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 334406012567 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 334406012568 putative tRNA-binding site [nucleotide binding]; other site 334406012569 hypothetical protein; Provisional; Region: PRK13668 334406012570 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 334406012571 catalytic residues [active] 334406012572 NTPase; Reviewed; Region: PRK03114 334406012573 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 334406012574 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 334406012575 oligomer interface [polypeptide binding]; other site 334406012576 active site 334406012577 metal binding site [ion binding]; metal-binding site 334406012578 Predicted small secreted protein [Function unknown]; Region: COG5584 334406012579 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406012580 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406012581 S-adenosylmethionine binding site [chemical binding]; other site 334406012582 YtzH-like protein; Region: YtzH; pfam14165 334406012583 Phosphotransferase enzyme family; Region: APH; pfam01636 334406012584 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 334406012585 active site 334406012586 substrate binding site [chemical binding]; other site 334406012587 ATP binding site [chemical binding]; other site 334406012588 pullulanase, type I; Region: pulA_typeI; TIGR02104 334406012589 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 334406012590 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 334406012591 Ca binding site [ion binding]; other site 334406012592 active site 334406012593 catalytic site [active] 334406012594 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 334406012595 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 334406012596 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 334406012597 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 334406012598 dipeptidase PepV; Reviewed; Region: PRK07318 334406012599 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 334406012600 active site 334406012601 metal binding site [ion binding]; metal-binding site 334406012602 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 334406012603 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 334406012604 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 334406012605 RNA binding surface [nucleotide binding]; other site 334406012606 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 334406012607 active site 334406012608 uracil binding [chemical binding]; other site 334406012609 stage V sporulation protein B; Region: spore_V_B; TIGR02900 334406012610 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 334406012611 HI0933-like protein; Region: HI0933_like; pfam03486 334406012612 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334406012613 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406012614 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406012615 putative substrate translocation pore; other site 334406012616 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406012617 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406012618 dimerization interface [polypeptide binding]; other site 334406012619 putative DNA binding site [nucleotide binding]; other site 334406012620 putative Zn2+ binding site [ion binding]; other site 334406012621 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 334406012622 putative hydrophobic ligand binding site [chemical binding]; other site 334406012623 Domain of unknown function (DUF3973); Region: DUF3973; pfam13119 334406012624 Protein of unknown function (DUF2758); Region: DUF2758; pfam10957 334406012625 Protein of unknown function (DUF2553); Region: DUF2553; pfam10830 334406012626 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 334406012627 glucose-1-dehydrogenase; Provisional; Region: PRK08936 334406012628 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 334406012629 NAD binding site [chemical binding]; other site 334406012630 homodimer interface [polypeptide binding]; other site 334406012631 active site 334406012632 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 334406012633 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 334406012634 Protein of unknown function (DUF3888); Region: DUF3888; pfam13027 334406012635 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 334406012636 MoaE interaction surface [polypeptide binding]; other site 334406012637 MoeB interaction surface [polypeptide binding]; other site 334406012638 thiocarboxylated glycine; other site 334406012639 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 334406012640 MoaE homodimer interface [polypeptide binding]; other site 334406012641 MoaD interaction [polypeptide binding]; other site 334406012642 active site residues [active] 334406012643 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 334406012644 Walker A motif; other site 334406012645 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 334406012646 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 334406012647 dimer interface [polypeptide binding]; other site 334406012648 putative functional site; other site 334406012649 putative MPT binding site; other site 334406012650 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 334406012651 trimer interface [polypeptide binding]; other site 334406012652 dimer interface [polypeptide binding]; other site 334406012653 putative active site [active] 334406012654 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional; Region: PRK12475 334406012655 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 334406012656 ATP binding site [chemical binding]; other site 334406012657 substrate interface [chemical binding]; other site 334406012658 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 334406012659 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406012660 FeS/SAM binding site; other site 334406012661 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 334406012662 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 334406012663 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 334406012664 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 334406012665 active site residue [active] 334406012666 homoserine O-acetyltransferase; Provisional; Region: PRK06765 334406012667 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 334406012668 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 334406012669 Spore germination protein; Region: Spore_permease; pfam03845 334406012670 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 334406012671 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 334406012672 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Exiguobacterium sibiricum YP_001813558.1 protein and its bacterial homologs; Region: NTP-PPase_YP_001813558; cd11545 334406012673 putative nucleotide binding site [chemical binding]; other site 334406012674 putative metal binding site [ion binding]; other site 334406012675 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 334406012676 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 334406012677 HIGH motif; other site 334406012678 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 334406012679 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 334406012680 active site 334406012681 KMSKS motif; other site 334406012682 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 334406012683 tRNA binding surface [nucleotide binding]; other site 334406012684 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406012685 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406012686 putative substrate translocation pore; other site 334406012687 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 334406012688 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 334406012689 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 334406012690 TrkA-C domain; Region: TrkA_C; pfam02080 334406012691 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 334406012692 Int/Topo IB signature motif; other site 334406012693 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334406012694 FtsX-like permease family; Region: FtsX; pfam02687 334406012695 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406012696 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406012697 Walker A/P-loop; other site 334406012698 ATP binding site [chemical binding]; other site 334406012699 Q-loop/lid; other site 334406012700 ABC transporter signature motif; other site 334406012701 Walker B; other site 334406012702 D-loop; other site 334406012703 H-loop/switch region; other site 334406012704 Predicted membrane protein [Function unknown]; Region: COG2311 334406012705 Protein of unknown function (DUF418); Region: DUF418; cl12135 334406012706 Protein of unknown function (DUF418); Region: DUF418; pfam04235 334406012707 Protein of unknown function (DUF2524); Region: DUF2524; pfam10732 334406012708 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 334406012709 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406012710 FeS/SAM binding site; other site 334406012711 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406012712 S-adenosylmethionine binding site [chemical binding]; other site 334406012713 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 334406012714 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334406012715 Walker A/P-loop; other site 334406012716 ATP binding site [chemical binding]; other site 334406012717 Q-loop/lid; other site 334406012718 ABC transporter signature motif; other site 334406012719 Walker B; other site 334406012720 D-loop; other site 334406012721 H-loop/switch region; other site 334406012722 aspartate racemase; Region: asp_race; TIGR00035 334406012723 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 334406012724 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70); Region: 3a0801s09; TIGR00990 334406012725 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 334406012726 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 334406012727 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 334406012728 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 334406012729 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 334406012730 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 334406012731 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 334406012732 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 334406012733 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 334406012734 trimer interface [polypeptide binding]; other site 334406012735 putative metal binding site [ion binding]; other site 334406012736 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 334406012737 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 334406012738 active site 334406012739 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334406012740 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 334406012741 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 334406012742 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 334406012743 GTP binding site; other site 334406012744 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 334406012745 MPT binding site; other site 334406012746 trimer interface [polypeptide binding]; other site 334406012747 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334406012748 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334406012749 S-adenosylmethionine synthetase; Validated; Region: PRK05250 334406012750 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 334406012751 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 334406012752 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 334406012753 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 334406012754 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 334406012755 active site 334406012756 substrate-binding site [chemical binding]; other site 334406012757 metal-binding site [ion binding] 334406012758 ATP binding site [chemical binding]; other site 334406012759 ATP synthase I chain; Region: ATP_synt_I; pfam03899 334406012760 EamA-like transporter family; Region: EamA; pfam00892 334406012761 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 334406012762 EamA-like transporter family; Region: EamA; pfam00892 334406012763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 334406012764 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406012765 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406012766 ATP binding site [chemical binding]; other site 334406012767 Mg2+ binding site [ion binding]; other site 334406012768 G-X-G motif; other site 334406012769 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406012770 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406012771 dimer interface [polypeptide binding]; other site 334406012772 phosphorylation site [posttranslational modification] 334406012773 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406012774 ATP binding site [chemical binding]; other site 334406012775 Mg2+ binding site [ion binding]; other site 334406012776 G-X-G motif; other site 334406012777 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 334406012778 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 334406012779 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 334406012780 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 334406012781 Sulfatase; Region: Sulfatase; pfam00884 334406012782 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 334406012783 Protein of unknown function (DUF3986); Region: DUF3986; pfam13143 334406012784 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 334406012785 NMT1-like family; Region: NMT1_2; pfam13379 334406012786 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 334406012787 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 334406012788 Walker A/P-loop; other site 334406012789 ATP binding site [chemical binding]; other site 334406012790 Q-loop/lid; other site 334406012791 ABC transporter signature motif; other site 334406012792 Walker B; other site 334406012793 D-loop; other site 334406012794 H-loop/switch region; other site 334406012795 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 334406012796 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406012797 dimer interface [polypeptide binding]; other site 334406012798 conserved gate region; other site 334406012799 putative PBP binding loops; other site 334406012800 ABC-ATPase subunit interface; other site 334406012801 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 334406012802 active site 334406012803 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 334406012804 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406012805 motif II; other site 334406012806 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 334406012807 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 334406012808 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_8; cd04665 334406012809 nudix motif; other site 334406012810 Tumour necrosis factor receptor superfamily member 19; Region: RELT; pfam12606 334406012811 S-ribosylhomocysteinase; Provisional; Region: PRK02260 334406012812 Haemolytic domain; Region: Haemolytic; pfam01809 334406012813 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 334406012814 active site clefts [active] 334406012815 zinc binding site [ion binding]; other site 334406012816 dimer interface [polypeptide binding]; other site 334406012817 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 334406012818 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 334406012819 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 334406012820 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 334406012821 S-layer homology domain; Region: SLH; pfam00395 334406012822 S-layer homology domain; Region: SLH; pfam00395 334406012823 S-layer homology domain; Region: SLH; pfam00395 334406012824 Excalibur calcium-binding domain; Region: Excalibur; smart00894 334406012825 Uncharacterized conserved protein [Function unknown]; Region: COG1434 334406012826 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 334406012827 putative active site [active] 334406012828 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406012829 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334406012830 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406012831 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 334406012832 Domain of unknown function (DUF4247); Region: DUF4247; pfam14042 334406012833 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 334406012834 Predicted membrane protein [Function unknown]; Region: COG3766 334406012835 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 334406012836 hypothetical protein; Provisional; Region: PRK12473 334406012837 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 334406012838 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 334406012839 G1 box; other site 334406012840 GTP/Mg2+ binding site [chemical binding]; other site 334406012841 Switch I region; other site 334406012842 G2 box; other site 334406012843 G3 box; other site 334406012844 Switch II region; other site 334406012845 G4 box; other site 334406012846 G5 box; other site 334406012847 Nucleoside recognition; Region: Gate; pfam07670 334406012848 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 334406012849 Nucleoside recognition; Region: Gate; pfam07670 334406012850 FeoA domain; Region: FeoA; pfam04023 334406012851 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 334406012852 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406012853 dimerization interface [polypeptide binding]; other site 334406012854 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406012855 dimer interface [polypeptide binding]; other site 334406012856 phosphorylation site [posttranslational modification] 334406012857 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406012858 ATP binding site [chemical binding]; other site 334406012859 Mg2+ binding site [ion binding]; other site 334406012860 G-X-G motif; other site 334406012861 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406012862 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406012863 active site 334406012864 phosphorylation site [posttranslational modification] 334406012865 intermolecular recognition site; other site 334406012866 dimerization interface [polypeptide binding]; other site 334406012867 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406012868 DNA binding site [nucleotide binding] 334406012869 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 334406012870 active site 334406012871 catalytic site [active] 334406012872 S-layer homology domain; Region: SLH; pfam00395 334406012873 S-layer homology domain; Region: SLH; pfam00395 334406012874 S-layer homology domain; Region: SLH; pfam00395 334406012875 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 334406012876 putative active site [active] 334406012877 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 334406012878 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334406012879 active site 334406012880 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 334406012881 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 334406012882 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 334406012883 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 334406012884 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334406012885 FtsX-like permease family; Region: FtsX; pfam02687 334406012886 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406012887 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406012888 Walker A/P-loop; other site 334406012889 ATP binding site [chemical binding]; other site 334406012890 Q-loop/lid; other site 334406012891 ABC transporter signature motif; other site 334406012892 Walker B; other site 334406012893 D-loop; other site 334406012894 H-loop/switch region; other site 334406012895 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 334406012896 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 334406012897 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 334406012898 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406012899 S-adenosylmethionine binding site [chemical binding]; other site 334406012900 YSIRK-targeted surface antigen transcriptional regulator; Region: adjacent_YSIRK; TIGR04094 334406012901 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334406012902 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334406012903 YolD-like protein; Region: YolD; pfam08863 334406012904 FtsX-like permease family; Region: FtsX; pfam02687 334406012905 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406012906 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406012907 Walker A/P-loop; other site 334406012908 ATP binding site [chemical binding]; other site 334406012909 Q-loop/lid; other site 334406012910 ABC transporter signature motif; other site 334406012911 Walker B; other site 334406012912 D-loop; other site 334406012913 H-loop/switch region; other site 334406012914 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 334406012915 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334406012916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 334406012917 Predicted integral membrane protein [Function unknown]; Region: COG5658 334406012918 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 334406012919 SdpI/YhfL protein family; Region: SdpI; pfam13630 334406012920 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406012921 dimerization interface [polypeptide binding]; other site 334406012922 putative DNA binding site [nucleotide binding]; other site 334406012923 putative Zn2+ binding site [ion binding]; other site 334406012924 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406012925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406012926 active site 334406012927 phosphorylation site [posttranslational modification] 334406012928 intermolecular recognition site; other site 334406012929 dimerization interface [polypeptide binding]; other site 334406012930 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406012931 DNA binding site [nucleotide binding] 334406012932 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406012933 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 334406012934 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406012935 ATP binding site [chemical binding]; other site 334406012936 Mg2+ binding site [ion binding]; other site 334406012937 G-X-G motif; other site 334406012938 FtsX-like permease family; Region: FtsX; pfam02687 334406012939 FtsX-like permease family; Region: FtsX; pfam02687 334406012940 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406012941 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406012942 Walker A/P-loop; other site 334406012943 ATP binding site [chemical binding]; other site 334406012944 Q-loop/lid; other site 334406012945 ABC transporter signature motif; other site 334406012946 Walker B; other site 334406012947 D-loop; other site 334406012948 H-loop/switch region; other site 334406012949 FtsX-like permease family; Region: FtsX; pfam02687 334406012950 fructuronate transporter; Provisional; Region: PRK10034; cl15264 334406012951 GntP family permease; Region: GntP_permease; pfam02447 334406012952 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 334406012953 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334406012954 DNA-binding site [nucleotide binding]; DNA binding site 334406012955 UTRA domain; Region: UTRA; pfam07702 334406012956 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 334406012957 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 334406012958 substrate binding site [chemical binding]; other site 334406012959 ATP binding site [chemical binding]; other site 334406012960 conserved hypothetical protein EF_0839/AHA_3917; Region: EF_0839; TIGR03581 334406012961 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 334406012962 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334406012963 catalytic residue [active] 334406012964 probable amidohydrolase EF_0837/AHA_3915; Region: EF_0837; TIGR03583 334406012965 Metallo-dependent hydrolases, subgroup B is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_B; cd01307 334406012966 active site 334406012967 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 334406012968 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 334406012969 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406012970 dimerization interface [polypeptide binding]; other site 334406012971 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406012972 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406012973 dimer interface [polypeptide binding]; other site 334406012974 phosphorylation site [posttranslational modification] 334406012975 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406012976 ATP binding site [chemical binding]; other site 334406012977 Mg2+ binding site [ion binding]; other site 334406012978 G-X-G motif; other site 334406012979 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406012980 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406012981 active site 334406012982 phosphorylation site [posttranslational modification] 334406012983 intermolecular recognition site; other site 334406012984 dimerization interface [polypeptide binding]; other site 334406012985 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406012986 DNA binding site [nucleotide binding] 334406012987 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 334406012988 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 334406012989 active site 334406012990 octamer interface [polypeptide binding]; other site 334406012991 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 334406012992 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 334406012993 acyl-activating enzyme (AAE) consensus motif; other site 334406012994 putative AMP binding site [chemical binding]; other site 334406012995 putative active site [active] 334406012996 putative CoA binding site [chemical binding]; other site 334406012997 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 334406012998 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 334406012999 substrate binding site [chemical binding]; other site 334406013000 oxyanion hole (OAH) forming residues; other site 334406013001 trimer interface [polypeptide binding]; other site 334406013002 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 334406013003 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 334406013004 nucleophilic elbow; other site 334406013005 catalytic triad; other site 334406013006 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 334406013007 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 334406013008 dimer interface [polypeptide binding]; other site 334406013009 tetramer interface [polypeptide binding]; other site 334406013010 PYR/PP interface [polypeptide binding]; other site 334406013011 TPP binding site [chemical binding]; other site 334406013012 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 334406013013 TPP-binding site; other site 334406013014 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 334406013015 chorismate binding enzyme; Region: Chorismate_bind; cl10555 334406013016 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 334406013017 UbiA prenyltransferase family; Region: UbiA; pfam01040 334406013018 regulatory protein, yteA family; Region: bacill_yteA; TIGR02890 334406013019 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 334406013020 DNA-binding site [nucleotide binding]; DNA binding site 334406013021 RNA-binding motif; other site 334406013022 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 334406013023 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 334406013024 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 334406013025 DNA binding residues [nucleotide binding] 334406013026 dimer interface [polypeptide binding]; other site 334406013027 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 334406013028 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 334406013029 active site flap/lid [active] 334406013030 nucleophilic elbow; other site 334406013031 catalytic triad [active] 334406013032 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 334406013033 homodimer interface [polypeptide binding]; other site 334406013034 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 334406013035 active site pocket [active] 334406013036 glycogen synthase; Provisional; Region: glgA; PRK00654 334406013037 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 334406013038 ADP-binding pocket [chemical binding]; other site 334406013039 homodimer interface [polypeptide binding]; other site 334406013040 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 334406013041 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 334406013042 ligand binding site; other site 334406013043 oligomer interface; other site 334406013044 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 334406013045 dimer interface [polypeptide binding]; other site 334406013046 N-terminal domain interface [polypeptide binding]; other site 334406013047 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 334406013048 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 334406013049 ligand binding site; other site 334406013050 oligomer interface; other site 334406013051 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 334406013052 dimer interface [polypeptide binding]; other site 334406013053 N-terminal domain interface [polypeptide binding]; other site 334406013054 sulfate 1 binding site; other site 334406013055 glycogen branching enzyme; Provisional; Region: PRK12313 334406013056 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 334406013057 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 334406013058 active site 334406013059 catalytic site [active] 334406013060 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 334406013061 Camelysin metallo-endopeptidase; Region: Peptidase_M73; cl13780 334406013062 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 334406013063 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 334406013064 putative active site [active] 334406013065 catalytic triad [active] 334406013066 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 334406013067 PA/protease domain interface [polypeptide binding]; other site 334406013068 putative integrin binding motif; other site 334406013069 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 334406013070 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 334406013071 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 334406013072 dockerin binding interface; other site 334406013073 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 334406013074 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 334406013075 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334406013076 NAD binding site [chemical binding]; other site 334406013077 dimer interface [polypeptide binding]; other site 334406013078 substrate binding site [chemical binding]; other site 334406013079 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 334406013080 MgtC family; Region: MgtC; pfam02308 334406013081 Ion channel; Region: Ion_trans_2; pfam07885 334406013082 TrkA-N domain; Region: TrkA_N; pfam02254 334406013083 YugN-like family; Region: YugN; pfam08868 334406013084 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 334406013085 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 334406013086 active site 334406013087 dimer interface [polypeptide binding]; other site 334406013088 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 334406013089 dimer interface [polypeptide binding]; other site 334406013090 active site 334406013091 Domain of unknown function (DUF378); Region: DUF378; pfam04070 334406013092 general stress protein 13; Validated; Region: PRK08059 334406013093 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 334406013094 RNA binding site [nucleotide binding]; other site 334406013095 hypothetical protein; Validated; Region: PRK07682 334406013096 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406013097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406013098 homodimer interface [polypeptide binding]; other site 334406013099 catalytic residue [active] 334406013100 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 334406013101 AsnC family; Region: AsnC_trans_reg; pfam01037 334406013102 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 334406013103 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 334406013104 dimerization interface [polypeptide binding]; other site 334406013105 ligand binding site [chemical binding]; other site 334406013106 NADP binding site [chemical binding]; other site 334406013107 catalytic site [active] 334406013108 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 334406013109 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334406013110 nucleophilic elbow; other site 334406013111 catalytic triad; other site 334406013112 Domain of unknown function (DUF1871); Region: DUF1871; pfam08958 334406013113 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 334406013114 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 334406013115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406013116 homodimer interface [polypeptide binding]; other site 334406013117 catalytic residue [active] 334406013118 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 334406013119 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 334406013120 E-class dimer interface [polypeptide binding]; other site 334406013121 P-class dimer interface [polypeptide binding]; other site 334406013122 active site 334406013123 Cu2+ binding site [ion binding]; other site 334406013124 Zn2+ binding site [ion binding]; other site 334406013125 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 334406013126 Kinase associated protein B; Region: KapB; pfam08810 334406013127 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 334406013128 active site 334406013129 catalytic site [active] 334406013130 substrate binding site [chemical binding]; other site 334406013131 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 334406013132 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 334406013133 transmembrane helices; other site 334406013134 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 334406013135 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 334406013136 active site 334406013137 glycyl-tRNA synthetase; Provisional; Region: PRK04173 334406013138 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 334406013139 motif 1; other site 334406013140 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 334406013141 active site 334406013142 motif 2; other site 334406013143 motif 3; other site 334406013144 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 334406013145 anticodon binding site; other site 334406013146 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 334406013147 CoenzymeA binding site [chemical binding]; other site 334406013148 subunit interaction site [polypeptide binding]; other site 334406013149 PHB binding site; other site 334406013150 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 334406013151 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 334406013152 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 334406013153 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 334406013154 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 334406013155 active site 334406013156 tetramer interface; other site 334406013157 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 334406013158 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 334406013159 active site 334406013160 substrate binding site [chemical binding]; other site 334406013161 metal binding site [ion binding]; metal-binding site 334406013162 Bacterial membrane-spanning protein N-terminus; Region: YojJ; pfam10372 334406013163 Uncharacterized conserved protein [Function unknown]; Region: COG1624 334406013164 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 334406013165 multifunctional aminopeptidase A; Provisional; Region: PRK00913 334406013166 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 334406013167 interface (dimer of trimers) [polypeptide binding]; other site 334406013168 Substrate-binding/catalytic site; other site 334406013169 Zn-binding sites [ion binding]; other site 334406013170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 334406013171 Putative membrane protein; Region: YuiB; pfam14068 334406013172 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 334406013173 nudix motif; other site 334406013174 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 334406013175 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334406013176 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 334406013177 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334406013178 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334406013179 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 334406013180 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406013181 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406013182 putative substrate translocation pore; other site 334406013183 Helix-turn-helix domain; Region: HTH_36; pfam13730 334406013184 Protein of unknown function (DUF523); Region: DUF523; pfam04463 334406013185 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 334406013186 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334406013187 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406013188 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 334406013189 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 334406013190 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 334406013191 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 334406013192 hypothetical protein; Provisional; Region: PRK13669 334406013193 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 334406013194 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334406013195 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 334406013196 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406013197 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406013198 Walker A/P-loop; other site 334406013199 ATP binding site [chemical binding]; other site 334406013200 Q-loop/lid; other site 334406013201 ABC transporter signature motif; other site 334406013202 Walker B; other site 334406013203 D-loop; other site 334406013204 H-loop/switch region; other site 334406013205 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 334406013206 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 334406013207 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 334406013208 PhnA protein; Region: PhnA; pfam03831 334406013209 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 334406013210 PQQ-like domain; Region: PQQ_2; pfam13360 334406013211 PQQ-like domain; Region: PQQ_2; pfam13360 334406013212 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 334406013213 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 334406013214 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 334406013215 CAAX protease self-immunity; Region: Abi; pfam02517 334406013216 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 334406013217 active site 334406013218 NTP binding site [chemical binding]; other site 334406013219 metal binding triad [ion binding]; metal-binding site 334406013220 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 334406013221 Protein of unknown function (DUF1462); Region: DUF1462; pfam07315 334406013222 NifU-like domain; Region: NifU; pfam01106 334406013223 spore coat protein YutH; Region: spore_yutH; TIGR02905 334406013224 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 334406013225 tetramer interfaces [polypeptide binding]; other site 334406013226 binuclear metal-binding site [ion binding]; other site 334406013227 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334406013228 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 334406013229 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 334406013230 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 334406013231 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406013232 active site 334406013233 motif I; other site 334406013234 motif II; other site 334406013235 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406013236 Predicted transcriptional regulator [Transcription]; Region: COG2345 334406013237 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406013238 putative Zn2+ binding site [ion binding]; other site 334406013239 putative DNA binding site [nucleotide binding]; other site 334406013240 Uncharacterized conserved protein [Function unknown]; Region: COG2445 334406013241 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 334406013242 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 334406013243 putative active site [active] 334406013244 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 334406013245 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 334406013246 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 334406013247 RNA binding surface [nucleotide binding]; other site 334406013248 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 334406013249 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 334406013250 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 334406013251 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 334406013252 DNA binding residues [nucleotide binding] 334406013253 dimer interface [polypeptide binding]; other site 334406013254 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 334406013255 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 334406013256 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 334406013257 catalytic core [active] 334406013258 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 334406013259 putative deacylase active site [active] 334406013260 lipoyl synthase; Provisional; Region: PRK05481 334406013261 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406013262 FeS/SAM binding site; other site 334406013263 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 334406013264 Peptidase family M23; Region: Peptidase_M23; pfam01551 334406013265 sporulation protein YunB; Region: spo_yunB; TIGR02832 334406013266 Uncharacterized conserved protein [Function unknown]; Region: COG3377 334406013267 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 334406013268 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 334406013269 active site 334406013270 metal binding site [ion binding]; metal-binding site 334406013271 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 334406013272 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 334406013273 FeS assembly protein SufB; Region: sufB; TIGR01980 334406013274 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 334406013275 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 334406013276 trimerization site [polypeptide binding]; other site 334406013277 active site 334406013278 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 334406013279 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 334406013280 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334406013281 catalytic residue [active] 334406013282 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 334406013283 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 334406013284 FeS assembly protein SufD; Region: sufD; TIGR01981 334406013285 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 334406013286 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 334406013287 Walker A/P-loop; other site 334406013288 ATP binding site [chemical binding]; other site 334406013289 Q-loop/lid; other site 334406013290 ABC transporter signature motif; other site 334406013291 Walker B; other site 334406013292 D-loop; other site 334406013293 H-loop/switch region; other site 334406013294 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 334406013295 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 334406013296 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 334406013297 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 334406013298 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 334406013299 ABC-ATPase subunit interface; other site 334406013300 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 334406013301 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 334406013302 Walker A/P-loop; other site 334406013303 ATP binding site [chemical binding]; other site 334406013304 Q-loop/lid; other site 334406013305 ABC transporter signature motif; other site 334406013306 Walker B; other site 334406013307 D-loop; other site 334406013308 H-loop/switch region; other site 334406013309 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 334406013310 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 334406013311 catalytic residues [active] 334406013312 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 334406013313 putative active site [active] 334406013314 putative metal binding site [ion binding]; other site 334406013315 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 334406013316 lipoyl attachment site [posttranslational modification]; other site 334406013317 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 334406013318 ArsC family; Region: ArsC; pfam03960 334406013319 putative ArsC-like catalytic residues; other site 334406013320 putative TRX-like catalytic residues [active] 334406013321 Protein of unknown function (DUF3937); Region: DUF3937; pfam13073 334406013322 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 334406013323 active site 334406013324 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 334406013325 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 334406013326 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 334406013327 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 334406013328 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334406013329 NAD binding site [chemical binding]; other site 334406013330 dimer interface [polypeptide binding]; other site 334406013331 substrate binding site [chemical binding]; other site 334406013332 Coat F domain; Region: Coat_F; pfam07875 334406013333 CAAX protease self-immunity; Region: Abi; pfam02517 334406013334 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406013335 salt bridge; other site 334406013336 non-specific DNA binding site [nucleotide binding]; other site 334406013337 sequence-specific DNA binding site [nucleotide binding]; other site 334406013338 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406013339 WHG domain; Region: WHG; pfam13305 334406013340 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334406013341 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 334406013342 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 334406013343 active site 334406013344 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 334406013345 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 334406013346 dimer interface [polypeptide binding]; other site 334406013347 active site 334406013348 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 334406013349 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 334406013350 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 334406013351 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 334406013352 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 334406013353 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 334406013354 substrate binding site [chemical binding]; other site 334406013355 oxyanion hole (OAH) forming residues; other site 334406013356 YuzL-like protein; Region: YuzL; pfam14115 334406013357 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334406013358 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 334406013359 Proline dehydrogenase; Region: Pro_dh; cl03282 334406013360 Protein of unknown function (DUF2573); Region: DUF2573; pfam10835 334406013361 Domain of unknown function DUF77; Region: DUF77; pfam01910 334406013362 Cache domain; Region: Cache_1; pfam02743 334406013363 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406013364 dimerization interface [polypeptide binding]; other site 334406013365 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 334406013366 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 334406013367 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 334406013368 dimer interface [polypeptide binding]; other site 334406013369 putative CheW interface [polypeptide binding]; other site 334406013370 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334406013371 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334406013372 Probable transposase; Region: OrfB_IS605; pfam01385 334406013373 Predicted transcriptional regulators [Transcription]; Region: COG1378 334406013374 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 334406013375 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 334406013376 C-terminal domain interface [polypeptide binding]; other site 334406013377 sugar binding site [chemical binding]; other site 334406013378 TQXA domain; Region: TQXA_dom; TIGR03934 334406013379 Cna protein B-type domain; Region: Cna_B; pfam05738 334406013380 Cna protein B-type domain; Region: Cna_B; pfam05738 334406013381 Cna protein B-type domain; Region: Cna_B; pfam05738 334406013382 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 334406013383 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406013384 putative substrate translocation pore; other site 334406013385 Uncharacterized distant relative of cell wall-associated hydrolases [Function unknown]; Region: COG3863 334406013386 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 334406013387 Spore germination protein; Region: Spore_permease; cl17796 334406013388 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334406013389 MAEBL; Provisional; Region: PTZ00121 334406013390 putative transposase OrfB; Reviewed; Region: PHA02517 334406013391 HTH-like domain; Region: HTH_21; pfam13276 334406013392 Integrase core domain; Region: rve; pfam00665 334406013393 Integrase core domain; Region: rve_2; pfam13333 334406013394 OxaA-like protein precursor; Validated; Region: PRK01622 334406013395 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334406013396 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334406013397 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 334406013398 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334406013399 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334406013400 hypothetical protein; Provisional; Region: PRK06758 334406013401 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cd05709 334406013402 active site 334406013403 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406013404 non-specific DNA binding site [nucleotide binding]; other site 334406013405 salt bridge; other site 334406013406 sequence-specific DNA binding site [nucleotide binding]; other site 334406013407 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 334406013408 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 334406013409 Protein of unknown function (DUF3978); Region: DUF3978; pfam13123 334406013410 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 334406013411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 334406013412 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406013413 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406013414 active site 334406013415 phosphorylation site [posttranslational modification] 334406013416 intermolecular recognition site; other site 334406013417 dimerization interface [polypeptide binding]; other site 334406013418 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406013419 DNA binding site [nucleotide binding] 334406013420 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406013421 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406013422 dimer interface [polypeptide binding]; other site 334406013423 phosphorylation site [posttranslational modification] 334406013424 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406013425 ATP binding site [chemical binding]; other site 334406013426 Mg2+ binding site [ion binding]; other site 334406013427 G-X-G motif; other site 334406013428 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 334406013429 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 334406013430 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 334406013431 active site 334406013432 HIGH motif; other site 334406013433 KMSKS motif; other site 334406013434 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 334406013435 tRNA binding surface [nucleotide binding]; other site 334406013436 anticodon binding site; other site 334406013437 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406013438 S-adenosylmethionine binding site [chemical binding]; other site 334406013439 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406013440 dimerization interface [polypeptide binding]; other site 334406013441 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 334406013442 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 334406013443 dimer interface [polypeptide binding]; other site 334406013444 putative CheW interface [polypeptide binding]; other site 334406013445 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406013446 dimerization interface [polypeptide binding]; other site 334406013447 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 334406013448 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 334406013449 dimer interface [polypeptide binding]; other site 334406013450 putative CheW interface [polypeptide binding]; other site 334406013451 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 334406013452 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 334406013453 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 334406013454 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 334406013455 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 334406013456 active site 334406013457 Zn binding site [ion binding]; other site 334406013458 Pirin-related protein [General function prediction only]; Region: COG1741 334406013459 Pirin; Region: Pirin; pfam02678 334406013460 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334406013461 MarR family; Region: MarR_2; pfam12802 334406013462 Protein of unknown function (DUF3920); Region: DUF3920; pfam13058 334406013463 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 334406013464 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 334406013465 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 334406013466 TrkA-C domain; Region: TrkA_C; pfam02080 334406013467 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 334406013468 amino acid carrier protein; Region: agcS; TIGR00835 334406013469 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 334406013470 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 334406013471 dimerization interface [polypeptide binding]; other site 334406013472 DPS ferroxidase diiron center [ion binding]; other site 334406013473 ion pore; other site 334406013474 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 334406013475 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cd11523 334406013476 metal binding site [ion binding]; metal-binding site 334406013477 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 334406013478 Ferritin-like domain; Region: Ferritin; pfam00210 334406013479 ferroxidase diiron center [ion binding]; other site 334406013480 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 334406013481 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 334406013482 Nucleoside recognition; Region: Gate; pfam07670 334406013483 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 334406013484 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 334406013485 amino acid carrier protein; Region: agcS; TIGR00835 334406013486 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 334406013487 amino acid carrier protein; Region: agcS; TIGR00835 334406013488 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 334406013489 NADH(P)-binding; Region: NAD_binding_10; pfam13460 334406013490 NAD binding site [chemical binding]; other site 334406013491 substrate binding site [chemical binding]; other site 334406013492 putative active site [active] 334406013493 Homeodomain-like domain; Region: HTH_23; cl17451 334406013494 putative transposase OrfB; Reviewed; Region: PHA02517 334406013495 HTH-like domain; Region: HTH_21; pfam13276 334406013496 Integrase core domain; Region: rve; pfam00665 334406013497 Integrase core domain; Region: rve_2; pfam13333 334406013498 Peptidase M60-like family; Region: M60-like; pfam13402 334406013499 TQXA domain; Region: TQXA_dom; TIGR03934 334406013500 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 334406013501 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 334406013502 active site 334406013503 catalytic tetrad [active] 334406013504 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 334406013505 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406013506 putative substrate translocation pore; other site 334406013507 Predicted transcriptional regulators [Transcription]; Region: COG1733 334406013508 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406013509 dimerization interface [polypeptide binding]; other site 334406013510 putative DNA binding site [nucleotide binding]; other site 334406013511 putative Zn2+ binding site [ion binding]; other site 334406013512 Uncharacterized conserved protein [Function unknown]; Region: COG2427 334406013513 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 334406013514 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334406013515 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 334406013516 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 334406013517 active site 334406013518 HIGH motif; other site 334406013519 dimer interface [polypeptide binding]; other site 334406013520 KMSKS motif; other site 334406013521 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 334406013522 RNA binding surface [nucleotide binding]; other site 334406013523 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: PRK12436 334406013524 FAD binding domain; Region: FAD_binding_4; pfam01565 334406013525 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 334406013526 Protein of unknown function (DUF3986); Region: DUF3986; pfam13143 334406013527 SET domain; Region: SET; pfam00856 334406013528 Domain of unknown function (DUF4077); Region: DUF4077; pfam13295 334406013529 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 334406013530 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 334406013531 dimer interface [polypeptide binding]; other site 334406013532 putative CheW interface [polypeptide binding]; other site 334406013533 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 334406013534 putative phosphate binding site [ion binding]; other site 334406013535 camphor resistance protein CrcB; Provisional; Region: PRK14219 334406013536 camphor resistance protein CrcB; Provisional; Region: PRK14205 334406013537 Protein of unknown function (DUF3947); Region: DUF3947; pfam13135 334406013538 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 334406013539 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406013540 H+ Antiporter protein; Region: 2A0121; TIGR00900 334406013541 putative substrate translocation pore; other site 334406013542 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406013543 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334406013544 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406013545 Domain of unknown function DUF87; Region: DUF87; pfam01935 334406013546 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406013547 ABC transporter; Region: ABC_tran_2; pfam12848 334406013548 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406013549 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334406013550 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334406013551 Coenzyme A binding pocket [chemical binding]; other site 334406013552 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 334406013553 Nuclease-related domain; Region: NERD; pfam08378 334406013554 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 334406013555 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 334406013556 Walker A/P-loop; other site 334406013557 ATP binding site [chemical binding]; other site 334406013558 Q-loop/lid; other site 334406013559 ABC transporter signature motif; other site 334406013560 Walker B; other site 334406013561 D-loop; other site 334406013562 H-loop/switch region; other site 334406013563 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406013564 ABC-ATPase subunit interface; other site 334406013565 dimer interface [polypeptide binding]; other site 334406013566 putative PBP binding regions; other site 334406013567 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 334406013568 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406013569 ABC-ATPase subunit interface; other site 334406013570 dimer interface [polypeptide binding]; other site 334406013571 putative PBP binding regions; other site 334406013572 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 334406013573 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 334406013574 putative ligand binding residues [chemical binding]; other site 334406013575 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406013576 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406013577 active site 334406013578 phosphorylation site [posttranslational modification] 334406013579 intermolecular recognition site; other site 334406013580 dimerization interface [polypeptide binding]; other site 334406013581 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406013582 DNA binding site [nucleotide binding] 334406013583 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334406013584 FtsX-like permease family; Region: FtsX; pfam02687 334406013585 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406013586 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406013587 Walker A/P-loop; other site 334406013588 ATP binding site [chemical binding]; other site 334406013589 Q-loop/lid; other site 334406013590 ABC transporter signature motif; other site 334406013591 Walker B; other site 334406013592 D-loop; other site 334406013593 H-loop/switch region; other site 334406013594 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 334406013595 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406013596 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406013597 dimerization interface [polypeptide binding]; other site 334406013598 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406013599 dimer interface [polypeptide binding]; other site 334406013600 phosphorylation site [posttranslational modification] 334406013601 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406013602 ATP binding site [chemical binding]; other site 334406013603 Mg2+ binding site [ion binding]; other site 334406013604 G-X-G motif; other site 334406013605 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406013606 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406013607 active site 334406013608 phosphorylation site [posttranslational modification] 334406013609 intermolecular recognition site; other site 334406013610 dimerization interface [polypeptide binding]; other site 334406013611 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406013612 DNA binding site [nucleotide binding] 334406013613 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 334406013614 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 334406013615 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406013616 S-adenosylmethionine binding site [chemical binding]; other site 334406013617 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 334406013618 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334406013619 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 334406013620 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406013621 dimerization interface [polypeptide binding]; other site 334406013622 putative DNA binding site [nucleotide binding]; other site 334406013623 putative Zn2+ binding site [ion binding]; other site 334406013624 hypothetical protein; Validated; Region: PRK08223 334406013625 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 334406013626 ATP binding site [chemical binding]; other site 334406013627 substrate interface [chemical binding]; other site 334406013628 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 334406013629 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 334406013630 substrate binding site [chemical binding]; other site 334406013631 active site 334406013632 cosubstrate binding site; other site 334406013633 catalytic site [active] 334406013634 Carboxy-terminal domain of Formyltransferase and similar domains; Region: FMT_C_like; cd08370 334406013635 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406013636 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406013637 putative substrate translocation pore; other site 334406013638 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406013639 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 334406013640 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 334406013641 tetramer interface [polypeptide binding]; other site 334406013642 active site 334406013643 Mg2+/Mn2+ binding site [ion binding]; other site 334406013644 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406013645 putative DNA binding site [nucleotide binding]; other site 334406013646 dimerization interface [polypeptide binding]; other site 334406013647 putative Zn2+ binding site [ion binding]; other site 334406013648 Protein of unknown function (DUF418); Region: DUF418; cl12135 334406013649 Protein of unknown function (DUF418); Region: DUF418; pfam04235 334406013650 CAAX protease self-immunity; Region: Abi; pfam02517 334406013651 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 334406013652 SmpB-tmRNA interface; other site 334406013653 ribonuclease R; Region: RNase_R; TIGR02063 334406013654 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 334406013655 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 334406013656 RNB domain; Region: RNB; pfam00773 334406013657 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 334406013658 RNA binding site [nucleotide binding]; other site 334406013659 Esterase/lipase [General function prediction only]; Region: COG1647 334406013660 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 334406013661 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 334406013662 holin-like protein; Validated; Region: PRK01658 334406013663 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cd00455 334406013664 active site 334406013665 enolase; Provisional; Region: eno; PRK00077 334406013666 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 334406013667 dimer interface [polypeptide binding]; other site 334406013668 metal binding site [ion binding]; metal-binding site 334406013669 substrate binding pocket [chemical binding]; other site 334406013670 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 334406013671 phosphoglyceromutase; Provisional; Region: PRK05434 334406013672 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 334406013673 triosephosphate isomerase; Provisional; Region: PRK14565 334406013674 substrate binding site [chemical binding]; other site 334406013675 dimer interface [polypeptide binding]; other site 334406013676 catalytic triad [active] 334406013677 Phosphoglycerate kinase; Region: PGK; pfam00162 334406013678 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 334406013679 substrate binding site [chemical binding]; other site 334406013680 hinge regions; other site 334406013681 ADP binding site [chemical binding]; other site 334406013682 catalytic site [active] 334406013683 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 334406013684 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 334406013685 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 334406013686 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 334406013687 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 334406013688 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 334406013689 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 334406013690 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 334406013691 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 334406013692 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 334406013693 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406013694 non-specific DNA binding site [nucleotide binding]; other site 334406013695 salt bridge; other site 334406013696 sequence-specific DNA binding site [nucleotide binding]; other site 334406013697 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 334406013698 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 334406013699 catalytic residues [active] 334406013700 catalytic nucleophile [active] 334406013701 Presynaptic Site I dimer interface [polypeptide binding]; other site 334406013702 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 334406013703 Synaptic Flat tetramer interface [polypeptide binding]; other site 334406013704 Synaptic Site I dimer interface [polypeptide binding]; other site 334406013705 DNA binding site [nucleotide binding] 334406013706 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 334406013707 DNA-binding interface [nucleotide binding]; DNA binding site 334406013708 Protein of unknown function (DUF3963); Region: DUF3963; pfam13124 334406013709 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 334406013710 DNA methylase; Region: N6_N4_Mtase; pfam01555 334406013711 DNA methylase; Region: N6_N4_Mtase; cl17433 334406013712 DEAD-like helicases superfamily; Region: DEXDc; smart00487 334406013713 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 334406013714 potential frameshift: common BLAST hit: gi|221642140|ref|YP_002533227.1| IS231-related transposase 334406013715 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 334406013716 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 334406013717 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 334406013718 active site 334406013719 DNA binding site [nucleotide binding] 334406013720 Int/Topo IB signature motif; other site 334406013721 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 334406013722 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 334406013723 stage V sporulation protein AD; Provisional; Region: PRK12404 334406013724 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 334406013725 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 334406013726 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 334406013727 Predicted membrane protein [Function unknown]; Region: COG2323 334406013728 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 334406013729 Clp protease; Region: CLP_protease; pfam00574 334406013730 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 334406013731 oligomer interface [polypeptide binding]; other site 334406013732 active site residues [active] 334406013733 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 334406013734 dimerization domain swap beta strand [polypeptide binding]; other site 334406013735 regulatory protein interface [polypeptide binding]; other site 334406013736 active site 334406013737 regulatory phosphorylation site [posttranslational modification]; other site 334406013738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 334406013739 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 334406013740 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 334406013741 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 334406013742 phosphate binding site [ion binding]; other site 334406013743 putative substrate binding pocket [chemical binding]; other site 334406013744 dimer interface [polypeptide binding]; other site 334406013745 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 334406013746 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 334406013747 putative active site [active] 334406013748 nucleotide binding site [chemical binding]; other site 334406013749 nudix motif; other site 334406013750 putative metal binding site [ion binding]; other site 334406013751 Domain of unknown function (DUF368); Region: DUF368; pfam04018 334406013752 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 334406013753 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334406013754 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334406013755 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406013756 binding surface 334406013757 TPR motif; other site 334406013758 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334406013759 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406013760 binding surface 334406013761 Tetratricopeptide repeat; Region: TPR_16; pfam13432 334406013762 TPR motif; other site 334406013763 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 334406013764 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 334406013765 trimer interface [polypeptide binding]; other site 334406013766 active site 334406013767 substrate binding site [chemical binding]; other site 334406013768 CoA binding site [chemical binding]; other site 334406013769 pyrophosphatase PpaX; Provisional; Region: PRK13288 334406013770 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406013771 active site 334406013772 motif I; other site 334406013773 motif II; other site 334406013774 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 334406013775 HPr kinase/phosphorylase; Provisional; Region: PRK05428 334406013776 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 334406013777 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 334406013778 Hpr binding site; other site 334406013779 active site 334406013780 homohexamer subunit interaction site [polypeptide binding]; other site 334406013781 Predicted membrane protein [Function unknown]; Region: COG1950 334406013782 Domain of unknown function (DUF4275); Region: DUF4275; pfam14101 334406013783 Domain of unknown function (DUF4275); Region: DUF4275; pfam14101 334406013784 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 334406013785 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 334406013786 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 334406013787 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 334406013788 excinuclease ABC subunit B; Provisional; Region: PRK05298 334406013789 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 334406013790 ATP binding site [chemical binding]; other site 334406013791 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406013792 nucleotide binding region [chemical binding]; other site 334406013793 ATP-binding site [chemical binding]; other site 334406013794 Ultra-violet resistance protein B; Region: UvrB; pfam12344 334406013795 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 334406013796 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 334406013797 DNA binding residues [nucleotide binding] 334406013798 dimer interface [polypeptide binding]; other site 334406013799 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 334406013800 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406013801 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406013802 non-specific DNA binding site [nucleotide binding]; other site 334406013803 salt bridge; other site 334406013804 sequence-specific DNA binding site [nucleotide binding]; other site 334406013805 Predicted membrane protein [Function unknown]; Region: COG2855 334406013806 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334406013807 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334406013808 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 334406013809 putative dimerization interface [polypeptide binding]; other site 334406013810 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 334406013811 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 334406013812 DNA binding residues [nucleotide binding] 334406013813 putative dimer interface [polypeptide binding]; other site 334406013814 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 334406013815 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 334406013816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406013817 H-loop/switch region; other site 334406013818 hypothetical protein; Provisional; Region: PRK12855 334406013819 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334406013820 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334406013821 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 334406013822 Walker A/P-loop; other site 334406013823 ATP binding site [chemical binding]; other site 334406013824 Q-loop/lid; other site 334406013825 ABC transporter signature motif; other site 334406013826 Walker B; other site 334406013827 D-loop; other site 334406013828 H-loop/switch region; other site 334406013829 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 334406013830 protein binding site [polypeptide binding]; other site 334406013831 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 334406013832 C-terminal peptidase (prc); Region: prc; TIGR00225 334406013833 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 334406013834 protein binding site [polypeptide binding]; other site 334406013835 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 334406013836 Catalytic dyad [active] 334406013837 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 334406013838 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 334406013839 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 334406013840 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406013841 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 334406013842 Walker A/P-loop; other site 334406013843 ATP binding site [chemical binding]; other site 334406013844 Q-loop/lid; other site 334406013845 ABC transporter signature motif; other site 334406013846 Walker B; other site 334406013847 D-loop; other site 334406013848 H-loop/switch region; other site 334406013849 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 334406013850 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 334406013851 peptide chain release factor 2; Provisional; Region: PRK06746 334406013852 This domain is found in peptide chain release factors; Region: PCRF; smart00937 334406013853 RF-1 domain; Region: RF-1; pfam00472 334406013854 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 334406013855 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 334406013856 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 334406013857 nucleotide binding region [chemical binding]; other site 334406013858 ATP-binding site [chemical binding]; other site 334406013859 SEC-C motif; Region: SEC-C; pfam02810 334406013860 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 334406013861 30S subunit binding site; other site 334406013862 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 334406013863 DNA-binding site [nucleotide binding]; DNA binding site 334406013864 RNA-binding motif; other site 334406013865 comF family protein; Region: comF; TIGR00201 334406013866 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334406013867 active site 334406013868 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 334406013869 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 334406013870 ATP binding site [chemical binding]; other site 334406013871 putative Mg++ binding site [ion binding]; other site 334406013872 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406013873 nucleotide binding region [chemical binding]; other site 334406013874 ATP-binding site [chemical binding]; other site 334406013875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 334406013876 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 334406013877 NlpC/P60 family; Region: NLPC_P60; pfam00877 334406013878 Predicted transcriptional regulators [Transcription]; Region: COG1733 334406013879 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406013880 dimerization interface [polypeptide binding]; other site 334406013881 putative DNA binding site [nucleotide binding]; other site 334406013882 putative Zn2+ binding site [ion binding]; other site 334406013883 EDD domain protein, DegV family; Region: DegV; TIGR00762 334406013884 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 334406013885 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 334406013886 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 334406013887 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 334406013888 Transcriptional regulator [Transcription]; Region: LytR; COG1316 334406013889 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 334406013890 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 334406013891 active site 334406013892 homodimer interface [polypeptide binding]; other site 334406013893 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 334406013894 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 334406013895 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 334406013896 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 334406013897 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 334406013898 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 334406013899 Mg++ binding site [ion binding]; other site 334406013900 putative catalytic motif [active] 334406013901 substrate binding site [chemical binding]; other site 334406013902 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 334406013903 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 334406013904 NodB motif; other site 334406013905 active site 334406013906 catalytic site [active] 334406013907 Zn binding site [ion binding]; other site 334406013908 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406013909 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 334406013910 Walker A motif; other site 334406013911 ATP binding site [chemical binding]; other site 334406013912 Walker B motif; other site 334406013913 arginine finger; other site 334406013914 Transcriptional antiterminator [Transcription]; Region: COG3933 334406013915 PRD domain; Region: PRD; pfam00874 334406013916 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 334406013917 active pocket/dimerization site; other site 334406013918 active site 334406013919 phosphorylation site [posttranslational modification] 334406013920 PRD domain; Region: PRD; pfam00874 334406013921 A domain in the BMP inhibitor chordin and in microbial proteins; Region: CHRD; smart00754 334406013922 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 334406013923 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 334406013924 Chromate transporter; Region: Chromate_transp; pfam02417 334406013925 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 334406013926 putative active site [active] 334406013927 YdjC motif; other site 334406013928 Mg binding site [ion binding]; other site 334406013929 putative homodimer interface [polypeptide binding]; other site 334406013930 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 334406013931 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 334406013932 NAD binding site [chemical binding]; other site 334406013933 sugar binding site [chemical binding]; other site 334406013934 divalent metal binding site [ion binding]; other site 334406013935 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334406013936 dimer interface [polypeptide binding]; other site 334406013937 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 334406013938 active site 334406013939 methionine cluster; other site 334406013940 phosphorylation site [posttranslational modification] 334406013941 metal binding site [ion binding]; metal-binding site 334406013942 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 334406013943 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 334406013944 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 334406013945 active site 334406013946 P-loop; other site 334406013947 phosphorylation site [posttranslational modification] 334406013948 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406013949 S-adenosylmethionine binding site [chemical binding]; other site 334406013950 S-adenosylmethionine decarboxylase proenzyme; Validated; Region: PRK01706 334406013951 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 334406013952 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 334406013953 LytTr DNA-binding domain; Region: LytTR; smart00850 334406013954 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 334406013955 methionine cluster; other site 334406013956 active site 334406013957 phosphorylation site [posttranslational modification] 334406013958 metal binding site [ion binding]; metal-binding site 334406013959 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 334406013960 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 334406013961 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 334406013962 active site 334406013963 P-loop; other site 334406013964 phosphorylation site [posttranslational modification] 334406013965 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 334406013966 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 334406013967 Acyltransferase family; Region: Acyl_transf_3; pfam01757 334406013968 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 334406013969 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406013970 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 334406013971 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 334406013972 active site 334406013973 catalytic site [active] 334406013974 Cna protein B-type domain; Region: Cna_B; pfam05738 334406013975 Cna protein B-type domain; Region: Cna_B; pfam05738 334406013976 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 334406013977 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 334406013978 Domain of unknown function DUF11; Region: DUF11; pfam01345 334406013979 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 334406013980 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406013981 Domain of unknown function DUF11; Region: DUF11; cl17728 334406013982 Cna protein B-type domain; Region: Cna_B; pfam05738 334406013983 Predicted membrane protein [Function unknown]; Region: COG1511 334406013984 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 334406013985 Predicted membrane protein [Function unknown]; Region: COG1511 334406013986 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 334406013987 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334406013988 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334406013989 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 334406013990 putative dimerization interface [polypeptide binding]; other site 334406013991 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 334406013992 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 334406013993 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 334406013994 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 334406013995 transmembrane helices; other site 334406013996 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 334406013997 ThiC-associated domain; Region: ThiC-associated; pfam13667 334406013998 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 334406013999 L-lactate permease; Region: Lactate_perm; cl00701 334406014000 glycolate transporter; Provisional; Region: PRK09695 334406014001 Tic20-like protein; Region: Tic20; pfam09685 334406014002 Uncharacterized metal-binding protein (DUF2227); Region: DUF2227; pfam09988 334406014003 Uncharacterized conserved protein [Function unknown]; Region: COG3339 334406014004 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 334406014005 Sulfatase; Region: Sulfatase; pfam00884 334406014006 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 334406014007 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 334406014008 homodimer interface [polypeptide binding]; other site 334406014009 substrate-cofactor binding pocket; other site 334406014010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406014011 catalytic residue [active] 334406014012 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406014013 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406014014 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406014015 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406014016 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406014017 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 334406014018 NlpC/P60 family; Region: NLPC_P60; pfam00877 334406014019 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 334406014020 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 334406014021 Nucleoside recognition; Region: Gate; pfam07670 334406014022 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 334406014023 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 334406014024 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 334406014025 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 334406014026 DXD motif; other site 334406014027 BCCT family transporter; Region: BCCT; pfam02028 334406014028 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406014029 Bacterial SH3 domain; Region: SH3_3; pfam08239 334406014030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 334406014031 Protein of unknown function (DUF3910); Region: DUF3910; pfam13049 334406014032 Predicted membrane protein [Function unknown]; Region: COG4640 334406014033 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 334406014034 Double zinc ribbon; Region: DZR; pfam12773 334406014035 Double zinc ribbon; Region: DZR; pfam12773 334406014036 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 334406014037 SNF2 Helicase protein; Region: DUF3670; pfam12419 334406014038 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 334406014039 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 334406014040 ATP binding site [chemical binding]; other site 334406014041 putative Mg++ binding site [ion binding]; other site 334406014042 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 334406014043 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406014044 nucleotide binding region [chemical binding]; other site 334406014045 ATP-binding site [chemical binding]; other site 334406014046 Predicted integral membrane protein [Function unknown]; Region: COG5652 334406014047 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 334406014048 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 334406014049 Domain of unknown function (DUF4359); Region: DUF4359; pfam14271 334406014050 ComK protein; Region: ComK; pfam06338 334406014051 RNA polymerase factor sigma-70; Validated; Region: PRK06759 334406014052 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406014053 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406014054 DNA binding residues [nucleotide binding] 334406014055 Yip1 domain; Region: Yip1; cl17815 334406014056 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 334406014057 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334406014058 FtsX-like permease family; Region: FtsX; pfam02687 334406014059 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334406014060 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334406014061 Walker A/P-loop; other site 334406014062 ATP binding site [chemical binding]; other site 334406014063 Q-loop/lid; other site 334406014064 ABC transporter signature motif; other site 334406014065 Walker B; other site 334406014066 D-loop; other site 334406014067 H-loop/switch region; other site 334406014068 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 334406014069 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 334406014070 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 334406014071 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406014072 putative substrate translocation pore; other site 334406014073 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 334406014074 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 334406014075 Protein of unknown function (DUF3919); Region: DUF3919; pfam13057 334406014076 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 334406014077 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406014078 dimerization interface [polypeptide binding]; other site 334406014079 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406014080 dimer interface [polypeptide binding]; other site 334406014081 phosphorylation site [posttranslational modification] 334406014082 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406014083 ATP binding site [chemical binding]; other site 334406014084 Mg2+ binding site [ion binding]; other site 334406014085 G-X-G motif; other site 334406014086 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406014087 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406014088 active site 334406014089 phosphorylation site [posttranslational modification] 334406014090 intermolecular recognition site; other site 334406014091 dimerization interface [polypeptide binding]; other site 334406014092 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406014093 DNA binding site [nucleotide binding] 334406014094 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 334406014095 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 334406014096 NAD binding site [chemical binding]; other site 334406014097 homodimer interface [polypeptide binding]; other site 334406014098 active site 334406014099 substrate binding site [chemical binding]; other site 334406014100 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 334406014101 catalytic triad [active] 334406014102 membrane-bound transcriptional regulator LytR; Provisional; Region: PRK09379 334406014103 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 334406014104 UDP-glucose 4-epimerase; Region: PLN02240 334406014105 NAD binding site [chemical binding]; other site 334406014106 homodimer interface [polypeptide binding]; other site 334406014107 active site 334406014108 substrate binding site [chemical binding]; other site 334406014109 O-antigen polysaccharide polymerase Wzy; Region: O-ag_pol_Wzy; pfam14296 334406014110 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 334406014111 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334406014112 putative ADP-binding pocket [chemical binding]; other site 334406014113 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 334406014114 putative glycosyl transferase; Provisional; Region: PRK10125 334406014115 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 334406014116 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 334406014117 active site 334406014118 homodimer interface [polypeptide binding]; other site 334406014119 capsular polysaccharide assembling protein (CAPF) like, extended (e) SDRs; Region: CAPF_like_SDR_e; cd05261 334406014120 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 334406014121 putative NAD(P) binding site [chemical binding]; other site 334406014122 active site 334406014123 putative substrate binding site [chemical binding]; other site 334406014124 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 334406014125 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 334406014126 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 334406014127 NAD(P) binding site [chemical binding]; other site 334406014128 homodimer interface [polypeptide binding]; other site 334406014129 substrate binding site [chemical binding]; other site 334406014130 active site 334406014131 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 334406014132 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334406014133 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 334406014134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334406014135 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 334406014136 active site 334406014137 Bacterial sugar transferase; Region: Bac_transf; pfam02397 334406014138 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 334406014139 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 334406014140 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 334406014141 NAD(P) binding site [chemical binding]; other site 334406014142 homodimer interface [polypeptide binding]; other site 334406014143 substrate binding site [chemical binding]; other site 334406014144 active site 334406014145 glucose-1-phosphate thymidylyltransferase RfbA; Provisional; Region: PRK15480 334406014146 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 334406014147 active site 334406014148 tetramer interface; other site 334406014149 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 334406014150 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 334406014151 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 334406014152 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 334406014153 Chain length determinant protein; Region: Wzz; cl15801 334406014154 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 334406014155 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 334406014156 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 334406014157 rod shape-determining protein Mbl; Provisional; Region: PRK13928 334406014158 MreB and similar proteins; Region: MreB_like; cd10225 334406014159 nucleotide binding site [chemical binding]; other site 334406014160 Mg binding site [ion binding]; other site 334406014161 putative protofilament interaction site [polypeptide binding]; other site 334406014162 RodZ interaction site [polypeptide binding]; other site 334406014163 Stage III sporulation protein D; Region: SpoIIID; pfam12116 334406014164 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 334406014165 Peptidase family M23; Region: Peptidase_M23; pfam01551 334406014166 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 334406014167 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 334406014168 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334406014169 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334406014170 Walker A/P-loop; other site 334406014171 ATP binding site [chemical binding]; other site 334406014172 Q-loop/lid; other site 334406014173 ABC transporter signature motif; other site 334406014174 Walker B; other site 334406014175 D-loop; other site 334406014176 H-loop/switch region; other site 334406014177 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334406014178 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334406014179 Walker A/P-loop; other site 334406014180 ATP binding site [chemical binding]; other site 334406014181 Q-loop/lid; other site 334406014182 ABC transporter signature motif; other site 334406014183 Walker B; other site 334406014184 D-loop; other site 334406014185 H-loop/switch region; other site 334406014186 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 334406014187 LytTr DNA-binding domain; Region: LytTR; pfam04397 334406014188 Stage II sporulation protein; Region: SpoIID; pfam08486 334406014189 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 334406014190 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 334406014191 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 334406014192 hinge; other site 334406014193 active site 334406014194 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 334406014195 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 334406014196 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 334406014197 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 334406014198 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 334406014199 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 334406014200 NADH:ubiquinone oxidoreductase subunit 5 (chain L)/Multisubunit Na+/H+ antiporter, MnhA subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NuoL; COG1009 334406014201 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 334406014202 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 334406014203 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 334406014204 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 334406014205 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 334406014206 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 334406014207 4Fe-4S binding domain; Region: Fer4; cl02805 334406014208 4Fe-4S binding domain; Region: Fer4; pfam00037 334406014209 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 334406014210 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 334406014211 NADH dehydrogenase subunit D; Provisional; Region: PRK12322 334406014212 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 334406014213 NADH dehydrogenase subunit C; Validated; Region: PRK07735 334406014214 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 334406014215 NADH dehydrogenase subunit B; Validated; Region: PRK06411 334406014216 NADH dehydrogenase subunit A; Validated; Region: PRK07756 334406014217 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406014218 PAS domain; Region: PAS_9; pfam13426 334406014219 putative active site [active] 334406014220 heme pocket [chemical binding]; other site 334406014221 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 334406014222 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 334406014223 metal binding site [ion binding]; metal-binding site 334406014224 active site 334406014225 I-site; other site 334406014226 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 334406014227 Protein of unknown function (DUF975); Region: DUF975; cl10504 334406014228 Protein of unknown function (DUF975); Region: DUF975; cl10504 334406014229 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 334406014230 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 334406014231 gamma subunit interface [polypeptide binding]; other site 334406014232 epsilon subunit interface [polypeptide binding]; other site 334406014233 LBP interface [polypeptide binding]; other site 334406014234 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 334406014235 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 334406014236 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 334406014237 alpha subunit interaction interface [polypeptide binding]; other site 334406014238 Walker A motif; other site 334406014239 ATP binding site [chemical binding]; other site 334406014240 Walker B motif; other site 334406014241 inhibitor binding site; inhibition site 334406014242 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 334406014243 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 334406014244 core domain interface [polypeptide binding]; other site 334406014245 delta subunit interface [polypeptide binding]; other site 334406014246 epsilon subunit interface [polypeptide binding]; other site 334406014247 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 334406014248 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 334406014249 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 334406014250 beta subunit interaction interface [polypeptide binding]; other site 334406014251 Walker A motif; other site 334406014252 ATP binding site [chemical binding]; other site 334406014253 Walker B motif; other site 334406014254 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 334406014255 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 334406014256 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 334406014257 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 334406014258 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 334406014259 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 334406014260 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 334406014261 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 334406014262 ATP synthase I chain; Region: ATP_synt_I; pfam03899 334406014263 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 334406014264 Protein of unknown function (DUF4024); Region: DUF4024; pfam13216 334406014265 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334406014266 active site 334406014267 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 334406014268 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 334406014269 dimer interface [polypeptide binding]; other site 334406014270 active site 334406014271 glycine-pyridoxal phosphate binding site [chemical binding]; other site 334406014272 folate binding site [chemical binding]; other site 334406014273 hypothetical protein; Provisional; Region: PRK13690 334406014274 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 334406014275 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 334406014276 Low molecular weight phosphatase family; Region: LMWPc; cd00115 334406014277 active site 334406014278 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 334406014279 HPr interaction site; other site 334406014280 glycerol kinase (GK) interaction site [polypeptide binding]; other site 334406014281 active site 334406014282 phosphorylation site [posttranslational modification] 334406014283 Predicted membrane protein [Function unknown]; Region: COG2259 334406014284 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 334406014285 Protein of unknown function (DUF3935); Region: DUF3935; pfam13071 334406014286 Predicted membrane protein [Function unknown]; Region: COG1971 334406014287 Domain of unknown function DUF; Region: DUF204; pfam02659 334406014288 Domain of unknown function DUF; Region: DUF204; pfam02659 334406014289 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 334406014290 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 334406014291 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334406014292 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 334406014293 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 334406014294 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406014295 S-adenosylmethionine binding site [chemical binding]; other site 334406014296 peptide chain release factor 1; Validated; Region: prfA; PRK00591 334406014297 This domain is found in peptide chain release factors; Region: PCRF; smart00937 334406014298 RF-1 domain; Region: RF-1; pfam00472 334406014299 thymidine kinase; Provisional; Region: PRK04296 334406014300 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 334406014301 transcription termination factor Rho; Provisional; Region: rho; PRK09376 334406014302 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 334406014303 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 334406014304 RNA binding site [nucleotide binding]; other site 334406014305 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 334406014306 multimer interface [polypeptide binding]; other site 334406014307 Walker A motif; other site 334406014308 ATP binding site [chemical binding]; other site 334406014309 Walker B motif; other site 334406014310 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 334406014311 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 334406014312 putative active site [active] 334406014313 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 334406014314 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 334406014315 hinge; other site 334406014316 active site 334406014317 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 334406014318 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 334406014319 intersubunit interface [polypeptide binding]; other site 334406014320 active site 334406014321 zinc binding site [ion binding]; other site 334406014322 Na+ binding site [ion binding]; other site 334406014323 Response regulator receiver domain; Region: Response_reg; pfam00072 334406014324 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406014325 active site 334406014326 phosphorylation site [posttranslational modification] 334406014327 intermolecular recognition site; other site 334406014328 dimerization interface [polypeptide binding]; other site 334406014329 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 334406014330 CTP synthetase; Validated; Region: pyrG; PRK05380 334406014331 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 334406014332 Catalytic site [active] 334406014333 active site 334406014334 UTP binding site [chemical binding]; other site 334406014335 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 334406014336 active site 334406014337 putative oxyanion hole; other site 334406014338 catalytic triad [active] 334406014339 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 334406014340 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406014341 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406014342 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 334406014343 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 334406014344 FAD binding site [chemical binding]; other site 334406014345 homotetramer interface [polypeptide binding]; other site 334406014346 substrate binding pocket [chemical binding]; other site 334406014347 catalytic base [active] 334406014348 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 334406014349 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 334406014350 FAD binding site [chemical binding]; other site 334406014351 homotetramer interface [polypeptide binding]; other site 334406014352 substrate binding pocket [chemical binding]; other site 334406014353 catalytic base [active] 334406014354 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 334406014355 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 334406014356 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 334406014357 acetyl-CoA acetyltransferase; Provisional; Region: PRK08235 334406014358 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 334406014359 dimer interface [polypeptide binding]; other site 334406014360 active site 334406014361 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 334406014362 4Fe-4S binding domain; Region: Fer4; cl02805 334406014363 Cysteine-rich domain; Region: CCG; pfam02754 334406014364 Cysteine-rich domain; Region: CCG; pfam02754 334406014365 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 334406014366 PLD-like domain; Region: PLDc_2; pfam13091 334406014367 putative active site [active] 334406014368 catalytic site [active] 334406014369 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 334406014370 PLD-like domain; Region: PLDc_2; pfam13091 334406014371 putative active site [active] 334406014372 catalytic site [active] 334406014373 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 334406014374 Domain of unknown function (DUF4084); Region: DUF4084; pfam13321 334406014375 PAS domain S-box; Region: sensory_box; TIGR00229 334406014376 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406014377 putative active site [active] 334406014378 heme pocket [chemical binding]; other site 334406014379 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 334406014380 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 334406014381 metal binding site [ion binding]; metal-binding site 334406014382 active site 334406014383 I-site; other site 334406014384 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 334406014385 Bacillus PapR protein; Region: Bacillus_PapR; pfam05968 334406014386 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406014387 non-specific DNA binding site [nucleotide binding]; other site 334406014388 salt bridge; other site 334406014389 sequence-specific DNA binding site [nucleotide binding]; other site 334406014390 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334406014391 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 334406014392 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406014393 active site 334406014394 phosphorylation site [posttranslational modification] 334406014395 intermolecular recognition site; other site 334406014396 dimerization interface [polypeptide binding]; other site 334406014397 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 334406014398 DNA binding residues [nucleotide binding] 334406014399 dimerization interface [polypeptide binding]; other site 334406014400 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 334406014401 Histidine kinase; Region: HisKA_3; pfam07730 334406014402 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406014403 ATP binding site [chemical binding]; other site 334406014404 Mg2+ binding site [ion binding]; other site 334406014405 G-X-G motif; other site 334406014406 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 334406014407 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 334406014408 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334406014409 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334406014410 Walker A/P-loop; other site 334406014411 ATP binding site [chemical binding]; other site 334406014412 Q-loop/lid; other site 334406014413 ABC transporter signature motif; other site 334406014414 Walker B; other site 334406014415 D-loop; other site 334406014416 H-loop/switch region; other site 334406014417 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 334406014418 active site 334406014419 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 334406014420 Proacrosin binding protein sp32; Region: PBP_sp32; pfam07222 334406014421 Collagen binding domain; Region: Collagen_bind; pfam05737 334406014422 Collagen binding domain; Region: Collagen_bind; pfam05737 334406014423 Collagen binding domain; Region: Collagen_bind; pfam05737 334406014424 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014425 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014426 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014427 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014428 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014429 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014430 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014431 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 334406014432 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014433 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014434 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014435 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014436 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 334406014437 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014438 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014439 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014440 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014441 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014442 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014443 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014444 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 334406014445 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014446 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014447 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014448 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014449 Cna protein B-type domain; Region: Cna_B; pfam05738 334406014450 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 334406014451 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cd00538 334406014452 PA/protease or protease-like domain interface [polypeptide binding]; other site 334406014453 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 334406014454 Peptidase family M28; Region: Peptidase_M28; pfam04389 334406014455 metal binding site [ion binding]; metal-binding site 334406014456 Domain of unknown function (DUF4281); Region: DUF4281; pfam14108 334406014457 RNA polymerase sigma factor; Provisional; Region: PRK12522 334406014458 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334406014459 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 334406014460 DNA binding residues [nucleotide binding] 334406014461 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 334406014462 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 334406014463 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 334406014464 active site 334406014465 HIGH motif; other site 334406014466 KMSK motif region; other site 334406014467 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 334406014468 tRNA binding surface [nucleotide binding]; other site 334406014469 anticodon binding site; other site 334406014470 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 334406014471 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 334406014472 putative dimer interface [polypeptide binding]; other site 334406014473 catalytic triad [active] 334406014474 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 334406014475 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 334406014476 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 334406014477 agmatinase; Region: agmatinase; TIGR01230 334406014478 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 334406014479 putative active site [active] 334406014480 Mn binding site [ion binding]; other site 334406014481 spermidine synthase; Provisional; Region: PRK00811 334406014482 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406014483 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406014484 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334406014485 putative substrate translocation pore; other site 334406014486 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 334406014487 Helix-Turn-Helix DNA binding domain of the YfmP transcription regulator; Region: HTH_YfmP; cd04774 334406014488 DNA binding residues [nucleotide binding] 334406014489 putative dimer interface [polypeptide binding]; other site 334406014490 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 334406014491 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 334406014492 active site 334406014493 catalytic site [active] 334406014494 metal binding site [ion binding]; metal-binding site 334406014495 dimer interface [polypeptide binding]; other site 334406014496 Transglycosylase; Region: Transgly; pfam00912 334406014497 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 334406014498 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334406014499 YwhD family; Region: YwhD; pfam08741 334406014500 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 334406014501 Peptidase family M50; Region: Peptidase_M50; pfam02163 334406014502 active site 334406014503 putative substrate binding region [chemical binding]; other site 334406014504 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 334406014505 active site 1 [active] 334406014506 dimer interface [polypeptide binding]; other site 334406014507 hexamer interface [polypeptide binding]; other site 334406014508 active site 2 [active] 334406014509 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 334406014510 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334406014511 Zn2+ binding site [ion binding]; other site 334406014512 Mg2+ binding site [ion binding]; other site 334406014513 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 334406014514 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 334406014515 intersubunit interface [polypeptide binding]; other site 334406014516 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 334406014517 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 334406014518 Walker A/P-loop; other site 334406014519 ATP binding site [chemical binding]; other site 334406014520 Q-loop/lid; other site 334406014521 ABC transporter signature motif; other site 334406014522 Walker B; other site 334406014523 D-loop; other site 334406014524 H-loop/switch region; other site 334406014525 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 334406014526 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406014527 ABC-ATPase subunit interface; other site 334406014528 dimer interface [polypeptide binding]; other site 334406014529 putative PBP binding regions; other site 334406014530 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 334406014531 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 334406014532 ABC-ATPase subunit interface; other site 334406014533 dimer interface [polypeptide binding]; other site 334406014534 putative PBP binding regions; other site 334406014535 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 334406014536 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 334406014537 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 334406014538 hypothetical protein; Provisional; Region: PRK12473 334406014539 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 334406014540 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 334406014541 putative heme peroxidase; Provisional; Region: PRK12276 334406014542 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 334406014543 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334406014544 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 334406014545 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 334406014546 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 334406014547 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; pfam09671 334406014548 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 334406014549 Ion channel; Region: Ion_trans_2; pfam07885 334406014550 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 334406014551 TrkA-N domain; Region: TrkA_N; pfam02254 334406014552 TrkA-C domain; Region: TrkA_C; pfam02080 334406014553 putative uracil/xanthine transporter; Provisional; Region: PRK11412 334406014554 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334406014555 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406014556 motif II; other site 334406014557 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406014558 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 334406014559 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 334406014560 ligand binding site [chemical binding]; other site 334406014561 active site 334406014562 UGI interface [polypeptide binding]; other site 334406014563 catalytic site [active] 334406014564 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 334406014565 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 334406014566 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 334406014567 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334406014568 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 334406014569 Walker A/P-loop; other site 334406014570 ATP binding site [chemical binding]; other site 334406014571 Q-loop/lid; other site 334406014572 ABC transporter signature motif; other site 334406014573 Walker B; other site 334406014574 D-loop; other site 334406014575 H-loop/switch region; other site 334406014576 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_YpmR_like; cd04506 334406014577 active site 334406014578 catalytic triad [active] 334406014579 oxyanion hole [active] 334406014580 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334406014581 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334406014582 DNA binding site [nucleotide binding] 334406014583 domain linker motif; other site 334406014584 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 334406014585 putative dimerization interface [polypeptide binding]; other site 334406014586 putative ligand binding site [chemical binding]; other site 334406014587 Predicted membrane protein [Function unknown]; Region: COG2364 334406014588 homoserine dehydrogenase; Provisional; Region: PRK06349 334406014589 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 334406014590 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 334406014591 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 334406014592 Homoserine O-succinyltransferase; Region: HTS; pfam04204 334406014593 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 334406014594 proposed active site lysine [active] 334406014595 conserved cys residue [active] 334406014596 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06702 334406014597 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 334406014598 homodimer interface [polypeptide binding]; other site 334406014599 substrate-cofactor binding pocket; other site 334406014600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334406014601 catalytic residue [active] 334406014602 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 334406014603 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 334406014604 Cl- selectivity filter; other site 334406014605 Cl- binding residues [ion binding]; other site 334406014606 pore gating glutamate residue; other site 334406014607 dimer interface [polypeptide binding]; other site 334406014608 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 334406014609 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406014610 active site 334406014611 motif I; other site 334406014612 motif II; other site 334406014613 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 334406014614 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 334406014615 ligand binding site [chemical binding]; other site 334406014616 flexible hinge region; other site 334406014617 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 334406014618 azoreductase; Provisional; Region: PRK13556 334406014619 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 334406014620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406014621 active site 334406014622 phosphorylation site [posttranslational modification] 334406014623 intermolecular recognition site; other site 334406014624 dimerization interface [polypeptide binding]; other site 334406014625 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 334406014626 DNA binding residues [nucleotide binding] 334406014627 dimerization interface [polypeptide binding]; other site 334406014628 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 334406014629 GAF domain; Region: GAF; pfam01590 334406014630 GAF domain; Region: GAF_3; pfam13492 334406014631 GAF domain; Region: GAF_2; pfam13185 334406014632 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 334406014633 Histidine kinase; Region: HisKA_3; pfam07730 334406014634 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 334406014635 ATP binding site [chemical binding]; other site 334406014636 Mg2+ binding site [ion binding]; other site 334406014637 G-X-G motif; other site 334406014638 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 334406014639 dimer interface [polypeptide binding]; other site 334406014640 substrate binding site [chemical binding]; other site 334406014641 ATP binding site [chemical binding]; other site 334406014642 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 334406014643 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 334406014644 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 334406014645 metal binding site [ion binding]; metal-binding site 334406014646 active site 334406014647 I-site; other site 334406014648 Protein of unknown function (DUF466); Region: DUF466; pfam04328 334406014649 carbon starvation protein A; Provisional; Region: PRK15015 334406014650 Carbon starvation protein CstA; Region: CstA; pfam02554 334406014651 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 334406014652 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 334406014653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406014654 active site 334406014655 phosphorylation site [posttranslational modification] 334406014656 intermolecular recognition site; other site 334406014657 dimerization interface [polypeptide binding]; other site 334406014658 LytTr DNA-binding domain; Region: LytTR; pfam04397 334406014659 benzoate transport; Region: 2A0115; TIGR00895 334406014660 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406014661 putative substrate translocation pore; other site 334406014662 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 334406014663 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 334406014664 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334406014665 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 334406014666 Predicted membrane protein [Function unknown]; Region: COG2860 334406014667 UPF0126 domain; Region: UPF0126; pfam03458 334406014668 UPF0126 domain; Region: UPF0126; pfam03458 334406014669 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 334406014670 heme-binding site [chemical binding]; other site 334406014671 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 334406014672 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 334406014673 dimer interface [polypeptide binding]; other site 334406014674 putative CheW interface [polypeptide binding]; other site 334406014675 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 334406014676 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 334406014677 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 334406014678 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 334406014679 Ligand binding site; other site 334406014680 Putative Catalytic site; other site 334406014681 DXD motif; other site 334406014682 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 334406014683 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 334406014684 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 334406014685 active site 334406014686 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 334406014687 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 334406014688 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334406014689 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406014690 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406014691 ABC transporter; Region: ABC_tran_2; pfam12848 334406014692 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334406014693 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334406014694 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334406014695 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 334406014696 Protein export membrane protein; Region: SecD_SecF; cl14618 334406014697 methionine sulfoxide reductase A; Provisional; Region: PRK14054 334406014698 methionine sulfoxide reductase B; Provisional; Region: PRK00222 334406014699 SelR domain; Region: SelR; pfam01641 334406014700 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 334406014701 antiholin-like protein LrgB; Provisional; Region: PRK04288 334406014702 murein hydrolase regulator LrgA; Provisional; Region: PRK04125 334406014703 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 334406014704 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406014705 active site 334406014706 phosphorylation site [posttranslational modification] 334406014707 intermolecular recognition site; other site 334406014708 dimerization interface [polypeptide binding]; other site 334406014709 LytTr DNA-binding domain; Region: LytTR; pfam04397 334406014710 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 334406014711 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 334406014712 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 334406014713 Histidine kinase; Region: His_kinase; pfam06580 334406014714 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406014715 ATP binding site [chemical binding]; other site 334406014716 Mg2+ binding site [ion binding]; other site 334406014717 G-X-G motif; other site 334406014718 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 334406014719 benzoate transport; Region: 2A0115; TIGR00895 334406014720 putative substrate translocation pore; other site 334406014721 BCCT family transporter; Region: BCCT; pfam02028 334406014722 Nitric oxide synthase (NOS) produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N(omega)-hydroxy-L-arginine (NHA) as an...; Region: NOS_oxygenase; cl00254 334406014723 active site 334406014724 dimer interface [polypeptide binding]; other site 334406014725 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 334406014726 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 334406014727 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 334406014728 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 334406014729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334406014730 NAD(P) binding site [chemical binding]; other site 334406014731 active site 334406014732 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 334406014733 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 334406014734 GAF domain; Region: GAF_3; pfam13492 334406014735 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406014736 binding surface 334406014737 TPR motif; other site 334406014738 Uncharacterized protein conserved in bacteria (DUF2194); Region: DUF2194; pfam09960 334406014739 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG4878; cd10924 334406014740 NodB motif; other site 334406014741 putative active site [active] 334406014742 putative catalytic site [active] 334406014743 putative Zn binding site [ion binding]; other site 334406014744 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 334406014745 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334406014746 Predicted membrane protein [Function unknown]; Region: COG4267 334406014747 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 334406014748 UDP-glucose 4-epimerase; Region: PLN02240 334406014749 NAD binding site [chemical binding]; other site 334406014750 homodimer interface [polypeptide binding]; other site 334406014751 active site 334406014752 substrate binding site [chemical binding]; other site 334406014753 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 334406014754 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 334406014755 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 334406014756 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 334406014757 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 334406014758 ATP binding site [chemical binding]; other site 334406014759 Mg++ binding site [ion binding]; other site 334406014760 motif III; other site 334406014761 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406014762 nucleotide binding region [chemical binding]; other site 334406014763 ATP-binding site [chemical binding]; other site 334406014764 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 334406014765 RNA binding site [nucleotide binding]; other site 334406014766 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 334406014767 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 334406014768 active site 334406014769 oligoendopeptidase F; Region: pepF; TIGR00181 334406014770 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 334406014771 active site 334406014772 Zn binding site [ion binding]; other site 334406014773 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 334406014774 FeS/SAM binding site; other site 334406014775 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 334406014776 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 334406014777 CxxH/CxxC protein, BA_5709 family; Region: CxxH_BA5709; TIGR04129 334406014778 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 334406014779 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 334406014780 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 334406014781 protein binding site [polypeptide binding]; other site 334406014782 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 334406014783 YycH protein; Region: YycI; pfam09648 334406014784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 334406014785 YycH protein; Region: YycH; pfam07435 334406014786 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 334406014787 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 334406014788 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406014789 dimerization interface [polypeptide binding]; other site 334406014790 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406014791 putative active site [active] 334406014792 heme pocket [chemical binding]; other site 334406014793 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406014794 dimer interface [polypeptide binding]; other site 334406014795 phosphorylation site [posttranslational modification] 334406014796 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406014797 ATP binding site [chemical binding]; other site 334406014798 Mg2+ binding site [ion binding]; other site 334406014799 G-X-G motif; other site 334406014800 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406014801 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406014802 active site 334406014803 phosphorylation site [posttranslational modification] 334406014804 intermolecular recognition site; other site 334406014805 dimerization interface [polypeptide binding]; other site 334406014806 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406014807 DNA binding site [nucleotide binding] 334406014808 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 334406014809 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 334406014810 GDP-binding site [chemical binding]; other site 334406014811 ACT binding site; other site 334406014812 IMP binding site; other site 334406014813 replicative DNA helicase; Provisional; Region: PRK05748 334406014814 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 334406014815 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 334406014816 Walker A motif; other site 334406014817 ATP binding site [chemical binding]; other site 334406014818 Walker B motif; other site 334406014819 DNA binding loops [nucleotide binding] 334406014820 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 334406014821 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 334406014822 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 334406014823 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 334406014824 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 334406014825 DHH family; Region: DHH; pfam01368 334406014826 DHHA1 domain; Region: DHHA1; pfam02272 334406014827 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 334406014828 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 334406014829 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 334406014830 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 334406014831 dimer interface [polypeptide binding]; other site 334406014832 ssDNA binding site [nucleotide binding]; other site 334406014833 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334406014834 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 334406014835 GTP-binding protein YchF; Reviewed; Region: PRK09601 334406014836 YchF GTPase; Region: YchF; cd01900 334406014837 G1 box; other site 334406014838 GTP/Mg2+ binding site [chemical binding]; other site 334406014839 Switch I region; other site 334406014840 G2 box; other site 334406014841 Switch II region; other site 334406014842 G3 box; other site 334406014843 G4 box; other site 334406014844 G5 box; other site 334406014845 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 334406014846 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 334406014847 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 334406014848 Mechanosensitive ion channel; Region: MS_channel; pfam00924 334406014849 putative sporulation protein YyaC; Region: spore_YyaC; TIGR02841 334406014850 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 334406014851 ParB-like nuclease domain; Region: ParB; smart00470 334406014852 KorB domain; Region: KorB; pfam08535 334406014853 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 334406014854 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 334406014855 P-loop; other site 334406014856 Magnesium ion binding site [ion binding]; other site 334406014857 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 334406014858 Magnesium ion binding site [ion binding]; other site 334406014859 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 334406014860 ParB-like nuclease domain; Region: ParBc; pfam02195 334406014861 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 334406014862 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406014863 S-adenosylmethionine binding site [chemical binding]; other site 334406014864 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 334406014865 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 334406014866 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 334406014867 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 334406014868 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 334406014869 trmE is a tRNA modification GTPase; Region: trmE; cd04164 334406014870 G1 box; other site 334406014871 GTP/Mg2+ binding site [chemical binding]; other site 334406014872 Switch I region; other site 334406014873 G2 box; other site 334406014874 Switch II region; other site 334406014875 G3 box; other site 334406014876 G4 box; other site 334406014877 G5 box; other site 334406014878 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 334406014879 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 334406014880 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 334406014881 G-X-X-G motif; other site 334406014882 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 334406014883 RxxxH motif; other site 334406014884 OxaA-like protein precursor; Validated; Region: PRK02944 334406014885 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 334406014886 ribonuclease P; Reviewed; Region: rnpA; PRK00499 334406014887 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 334406014888 plasmid segregation protein ParM; Provisional; Region: PRK13917 334406014889 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 334406014890 Mg binding site [ion binding]; other site 334406014891 nucleotide binding site [chemical binding]; other site 334406014892 putative protofilament interface [polypeptide binding]; other site 334406014893 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 334406014894 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 334406014895 amidase catalytic site [active] 334406014896 Zn binding residues [ion binding]; other site 334406014897 substrate binding site [chemical binding]; other site 334406014898 Bacterial SH3 domain; Region: SH3_3; cl17532 334406014899 Bacteriophage holin; Region: Phage_holin_1; cl02344 334406014900 Haemolysin XhlA; Region: XhlA; pfam10779 334406014901 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 334406014902 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 334406014903 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 334406014904 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 334406014905 Phage tail protein; Region: Sipho_tail; pfam05709 334406014906 Phage tail protein; Region: Sipho_tail; cl17486 334406014907 Phage-related protein [Function unknown]; Region: COG5412 334406014908 Bacteriophage Gp15 protein; Region: Phage_Gp15; pfam06854 334406014909 Minor capsid protein; Region: Minor_capsid_2; pfam11114 334406014910 Minor capsid protein; Region: Minor_capsid_1; pfam10665 334406014911 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 334406014912 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 334406014913 phage portal protein, putative, A118 family; Region: A118_put_portal; TIGR01542 334406014914 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 334406014915 Phage terminase large subunit; Region: Terminase_3; cl12054 334406014916 Phage terminase small subunit; Region: Phage_terminase; pfam10668 334406014917 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: XtmA; COG3728 334406014918 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 334406014919 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 334406014920 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 334406014921 YopX protein; Region: YopX; pfam09643 334406014922 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 334406014923 trimer interface [polypeptide binding]; other site 334406014924 active site 334406014925 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 334406014926 catalytic residues [active] 334406014927 Protein of unknown function (DUF3940); Region: DUF3940; pfam13076 334406014928 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 334406014929 hypothetical protein; Validated; Region: PRK08116 334406014930 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406014931 Walker A motif; other site 334406014932 ATP binding site [chemical binding]; other site 334406014933 Helix-turn-helix domain; Region: HTH_36; pfam13730 334406014934 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 334406014935 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 334406014936 BRO family, N-terminal domain; Region: Bro-N; smart01040 334406014937 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406014938 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406014939 non-specific DNA binding site [nucleotide binding]; other site 334406014940 salt bridge; other site 334406014941 sequence-specific DNA binding site [nucleotide binding]; other site 334406014942 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406014943 non-specific DNA binding site [nucleotide binding]; other site 334406014944 salt bridge; other site 334406014945 sequence-specific DNA binding site [nucleotide binding]; other site 334406014946 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 334406014947 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406014948 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406014949 non-specific DNA binding site [nucleotide binding]; other site 334406014950 salt bridge; other site 334406014951 sequence-specific DNA binding site [nucleotide binding]; other site 334406014952 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 334406014953 potential frameshift: common BLAST hit: gi|190710336|ref|YP_001976139.1| Mob 334406014954 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 334406014955 CASP C terminal; Region: CASP_C; pfam08172 334406014956 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 334406014957 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 334406014958 putative dimer interface [polypeptide binding]; other site 334406014959 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 334406014960 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 334406014961 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 334406014962 Nuclease-related domain; Region: NERD; pfam08378 334406014963 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 334406014964 ATP binding site [chemical binding]; other site 334406014965 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 334406014966 nucleotide binding region [chemical binding]; other site 334406014967 ATP-binding site [chemical binding]; other site 334406014968 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 334406014969 S-adenosylmethionine binding site [chemical binding]; other site 334406014970 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 334406014971 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 334406014972 putative active site [active] 334406014973 putative NTP binding site [chemical binding]; other site 334406014974 putative nucleic acid binding site [nucleotide binding]; other site 334406014975 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 334406014976 active site 334406014977 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334406014978 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334406014979 Walker A/P-loop; other site 334406014980 ATP binding site [chemical binding]; other site 334406014981 Q-loop/lid; other site 334406014982 ABC transporter signature motif; other site 334406014983 Walker B; other site 334406014984 D-loop; other site 334406014985 H-loop/switch region; other site 334406014986 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 334406014987 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 334406014988 The adenylation domain (A domain) of a family of nonribosomal peptide synthetases (NRPSs) synthesizing toxins and antitumor agents; Region: A_NRPS_TubE_like; cd05906 334406014989 acyl-activating enzyme (AAE) consensus motif; other site 334406014990 putative AMP binding site [chemical binding]; other site 334406014991 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 334406014992 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 334406014993 putative NADP binding site [chemical binding]; other site 334406014994 active site 334406014995 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 334406014996 Condensation domain; Region: Condensation; pfam00668 334406014997 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 334406014998 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 334406014999 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 334406015000 acyl-activating enzyme (AAE) consensus motif; other site 334406015001 AMP binding site [chemical binding]; other site 334406015002 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 334406015003 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 334406015004 The adenylation domain (A domain) of a family of nonribosomal peptide synthetases (NRPSs) synthesizing toxins and antitumor agents; Region: A_NRPS_TubE_like; cd05906 334406015005 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 334406015006 acyl-activating enzyme (AAE) consensus motif; other site 334406015007 putative AMP binding site [chemical binding]; other site 334406015008 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 334406015009 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 334406015010 putative NADP binding site [chemical binding]; other site 334406015011 active site 334406015012 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 334406015013 Condensation domain; Region: Condensation; pfam00668 334406015014 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 334406015015 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 334406015016 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 334406015017 acyl-activating enzyme (AAE) consensus motif; other site 334406015018 AMP binding site [chemical binding]; other site 334406015019 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 334406015020 Condensation domain; Region: Condensation; pfam00668 334406015021 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 334406015022 Condensation domain; Region: Condensation; pfam00668 334406015023 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 334406015024 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 334406015025 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 334406015026 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 334406015027 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 334406015028 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 334406015029 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334406015030 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406015031 non-specific DNA binding site [nucleotide binding]; other site 334406015032 sequence-specific DNA binding site [nucleotide binding]; other site 334406015033 salt bridge; other site 334406015034 CAAX protease self-immunity; Region: Abi; pfam02517 334406015035 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406015036 dimerization interface [polypeptide binding]; other site 334406015037 putative DNA binding site [nucleotide binding]; other site 334406015038 putative Zn2+ binding site [ion binding]; other site 334406015039 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 334406015040 Chitin binding domain; Region: Chitin_bind_3; pfam03067 334406015041 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 334406015042 Interdomain contacts; other site 334406015043 Cytokine receptor motif; other site 334406015044 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 334406015045 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 334406015046 Interdomain contacts; other site 334406015047 Cytokine receptor motif; other site 334406015048 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 334406015049 aromatic chitin/cellulose binding site residues [chemical binding]; other site 334406015050 F0F1 ATP synthase subunit alpha; Validated; Region: PRK06763 334406015051 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 334406015052 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 334406015053 PAS domain; Region: PAS_9; pfam13426 334406015054 putative active site [active] 334406015055 heme pocket [chemical binding]; other site 334406015056 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 334406015057 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 334406015058 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 334406015059 active site 334406015060 Zn binding site [ion binding]; other site 334406015061 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 334406015062 putative active site [active] 334406015063 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 334406015064 NlpC/P60 family; Region: NLPC_P60; pfam00877 334406015065 TIR domain; Region: TIR_2; pfam13676 334406015066 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406015067 putative DNA binding site [nucleotide binding]; other site 334406015068 putative Zn2+ binding site [ion binding]; other site 334406015069 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 334406015070 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 334406015071 Helix-turn-helix domain; Region: HTH_38; pfam13936 334406015072 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 334406015073 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 334406015074 active site 334406015075 catalytic residues [active] 334406015076 DNA binding site [nucleotide binding] 334406015077 Int/Topo IB signature motif; other site 334406015078 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 334406015079 Active Sites [active] 334406015080 HEPN domain; Region: HEPN; pfam05168 334406015081 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 334406015082 active site 334406015083 NTP binding site [chemical binding]; other site 334406015084 metal binding triad [ion binding]; metal-binding site 334406015085 antibiotic binding site [chemical binding]; other site 334406015086 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 334406015087 ATP binding site [chemical binding]; other site 334406015088 substrate interface [chemical binding]; other site 334406015089 PRTRC system protein A; Region: PRTRC_A; TIGR03735 334406015090 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 334406015091 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 334406015092 DNA polymerase III subunit beta; Validated; Region: PRK05643 334406015093 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 334406015094 putative DNA binding surface [nucleotide binding]; other site 334406015095 dimer interface [polypeptide binding]; other site 334406015096 beta-clamp/clamp loader binding surface; other site 334406015097 beta-clamp/translesion DNA polymerase binding surface; other site 334406015098 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 334406015099 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 334406015100 putative active site [active] 334406015101 putative NTP binding site [chemical binding]; other site 334406015102 putative nucleic acid binding site [nucleotide binding]; other site 334406015103 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 334406015104 Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Region: RpsA; COG0539 334406015105 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cd00455 334406015106 active site 334406015107 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 334406015108 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 334406015109 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 334406015110 putative active site [active] 334406015111 putative NTP binding site [chemical binding]; other site 334406015112 putative nucleic acid binding site [nucleotide binding]; other site 334406015113 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 334406015114 Domain of unknown function (DUF373); Region: DUF373; cl12079 334406015115 AAA-like domain; Region: AAA_10; pfam12846 334406015116 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 334406015117 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 334406015118 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 334406015119 Replication-relaxation; Region: Replic_Relax; pfam13814 334406015120 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 334406015121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334406015122 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334406015123 Probable transposase; Region: OrfB_IS605; pfam01385 334406015124 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334406015125 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 334406015126 S-layer homology domain; Region: SLH; pfam00395 334406015127 S-layer homology domain; Region: SLH; pfam00395 334406015128 S-layer homology domain; Region: SLH; pfam00395 334406015129 putative transposase OrfB; Reviewed; Region: PHA02517 334406015130 HTH-like domain; Region: HTH_21; pfam13276 334406015131 Integrase core domain; Region: rve; pfam00665 334406015132 Integrase core domain; Region: rve_2; pfam13333 334406015133 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 334406015134 Helix-turn-helix domain; Region: HTH_28; pfam13518 334406015135 Helix-turn-helix domain; Region: HTH_28; pfam13518 334406015136 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 334406015137 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 334406015138 AAA domain; Region: AAA_31; pfam13614 334406015139 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 334406015140 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 334406015141 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 334406015142 Walker A motif; other site 334406015143 ATP binding site [chemical binding]; other site 334406015144 Walker B motif; other site 334406015145 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334406015146 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334406015147 Probable transposase; Region: OrfB_IS605; pfam01385 334406015148 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334406015149 WxL domain surface cell wall-binding; Region: WxL; pfam13731 334406015150 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 334406015151 active site 334406015152 catalytic site [active] 334406015153 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 334406015154 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 334406015155 Protein of unknown function (DUF3956); Region: DUF3956; pfam13104 334406015156 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 334406015157 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 334406015158 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 334406015159 catalytic residues [active] 334406015160 catalytic nucleophile [active] 334406015161 Presynaptic Site I dimer interface [polypeptide binding]; other site 334406015162 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 334406015163 Synaptic Flat tetramer interface [polypeptide binding]; other site 334406015164 Synaptic Site I dimer interface [polypeptide binding]; other site 334406015165 DNA binding site [nucleotide binding] 334406015166 S-layer homology domain; Region: SLH; pfam00395 334406015167 S-layer homology domain; Region: SLH; pfam00395 334406015168 S-layer homology domain; Region: SLH; pfam00395 334406015169 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 334406015170 A pre-toxin domain with the TG motif; Region: PT-TG; pfam14449 334406015171 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 334406015172 active site 334406015173 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 334406015174 RNAase interaction site [polypeptide binding]; other site 334406015175 ARID/BRIGHT DNA binding domain; Region: ARID; cl02633 334406015176 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 334406015177 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cd00188 334406015178 active site 334406015179 metal binding site [ion binding]; metal-binding site 334406015180 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 334406015181 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 334406015182 PrgI family protein; Region: PrgI; pfam12666 334406015183 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 334406015184 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 334406015185 putative active site [active] 334406015186 putative NTP binding site [chemical binding]; other site 334406015187 putative nucleic acid binding site [nucleotide binding]; other site 334406015188 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 334406015189 active site 334406015190 AAA-like domain; Region: AAA_10; pfam12846 334406015191 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 334406015192 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 334406015193 N-acetyl-D-glucosamine binding site [chemical binding]; other site 334406015194 catalytic residue [active] 334406015195 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 334406015196 Peptidase family M23; Region: Peptidase_M23; pfam01551 334406015197 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 334406015198 NlpC/P60 family; Region: NLPC_P60; pfam00877 334406015199 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 334406015200 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 334406015201 CAAX protease self-immunity; Region: Abi; pfam02517 334406015202 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 334406015203 Predicted membrane protein [Function unknown]; Region: COG2311 334406015204 Protein of unknown function (DUF418); Region: DUF418; cl12135 334406015205 Protein of unknown function (DUF418); Region: DUF418; pfam04235 334406015206 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 334406015207 catalytic residues [active] 334406015208 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 334406015209 IHF dimer interface [polypeptide binding]; other site 334406015210 IHF - DNA interface [nucleotide binding]; other site 334406015211 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 334406015212 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 334406015213 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334406015214 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406015215 non-specific DNA binding site [nucleotide binding]; other site 334406015216 salt bridge; other site 334406015217 sequence-specific DNA binding site [nucleotide binding]; other site 334406015218 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 334406015219 active site 334406015220 Int/Topo IB signature motif; other site 334406015221 DNA binding site [nucleotide binding] 334406015222 potential frameshift: common BLAST hit: gi|301068215|ref|YP_003786986.1| transposase for transposon Tn554 334406015223 Helix-turn-helix domain; Region: HTH_17; pfam12728 334406015224 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 334406015225 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 334406015226 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 334406015227 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 334406015228 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406015229 dimerization interface [polypeptide binding]; other site 334406015230 putative DNA binding site [nucleotide binding]; other site 334406015231 putative Zn2+ binding site [ion binding]; other site 334406015232 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 334406015233 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 334406015234 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 334406015235 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 334406015236 multiple promoter invertase; Provisional; Region: mpi; PRK13413 334406015237 catalytic residues [active] 334406015238 catalytic nucleophile [active] 334406015239 Presynaptic Site I dimer interface [polypeptide binding]; other site 334406015240 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 334406015241 Synaptic Flat tetramer interface [polypeptide binding]; other site 334406015242 Synaptic Site I dimer interface [polypeptide binding]; other site 334406015243 DNA binding site [nucleotide binding] 334406015244 Helix-turn-helix domain of resolvase; Region: HTH_7; pfam02796 334406015245 DNA-binding interface [nucleotide binding]; DNA binding site 334406015246 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 334406015247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334406015248 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 334406015249 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 334406015250 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 334406015251 Presynaptic Site I dimer interface [polypeptide binding]; other site 334406015252 catalytic residues [active] 334406015253 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 334406015254 Synaptic Flat tetramer interface [polypeptide binding]; other site 334406015255 Synaptic Site I dimer interface [polypeptide binding]; other site 334406015256 DNA binding site [nucleotide binding] 334406015257 Helix-turn-helix domain of resolvase; Region: HTH_7; pfam02796 334406015258 DNA-binding interface [nucleotide binding]; DNA binding site 334406015259 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 334406015260 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 334406015261 active site 334406015262 metal binding site [ion binding]; metal-binding site 334406015263 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 334406015264 catalytic core [active] 334406015265 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 334406015266 nucleotide binding site/active site [active] 334406015267 HIT family signature motif; other site 334406015268 catalytic residue [active] 334406015269 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 334406015270 Integrase core domain; Region: rve; pfam00665 334406015271 transposase/IS protein; Provisional; Region: PRK09183 334406015272 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 334406015273 Walker A motif; other site 334406015274 ATP binding site [chemical binding]; other site 334406015275 Walker B motif; other site 334406015276 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 334406015277 DNA-binding interface [nucleotide binding]; DNA binding site 334406015278 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 334406015279 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334406015280 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334406015281 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 334406015282 active site 334406015283 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 334406015284 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 334406015285 multiple promoter invertase; Provisional; Region: mpi; PRK13413 334406015286 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 334406015287 catalytic residues [active] 334406015288 catalytic nucleophile [active] 334406015289 Presynaptic Site I dimer interface [polypeptide binding]; other site 334406015290 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 334406015291 Synaptic Flat tetramer interface [polypeptide binding]; other site 334406015292 Synaptic Site I dimer interface [polypeptide binding]; other site 334406015293 DNA binding site [nucleotide binding] 334406015294 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 334406015295 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 334406015296 salt bridge; other site 334406015297 non-specific DNA binding site [nucleotide binding]; other site 334406015298 sequence-specific DNA binding site [nucleotide binding]; other site 334406015299 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 334406015300 Predicted membrane protein [Function unknown]; Region: COG2323 334406015301 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 334406015302 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 334406015303 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 334406015304 putative active site [active] 334406015305 catalytic site [active] 334406015306 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 334406015307 putative active site [active] 334406015308 catalytic site [active] 334406015309 Predicted membrane protein [Function unknown]; Region: COG2323 334406015310 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 334406015311 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 334406015312 stage V sporulation protein AD; Provisional; Region: PRK12404 334406015313 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 334406015314 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 334406015315 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 334406015316 Predicted membrane protein [Function unknown]; Region: COG2323 334406015317 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 334406015318 Clp protease; Region: CLP_protease; pfam00574 334406015319 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 334406015320 oligomer interface [polypeptide binding]; other site 334406015321 active site residues [active] 334406015322 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 334406015323 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 334406015324 Presynaptic Site I dimer interface [polypeptide binding]; other site 334406015325 catalytic residues [active] 334406015326 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 334406015327 Synaptic Flat tetramer interface [polypeptide binding]; other site 334406015328 Synaptic Site I dimer interface [polypeptide binding]; other site 334406015329 DNA binding site [nucleotide binding] 334406015330 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 334406015331 DNA-binding interface [nucleotide binding]; DNA binding site 334406015332 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 334406015333 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 334406015334 Spore germination protein; Region: Spore_permease; cl17796 334406015335 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 334406015336 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 334406015337 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 334406015338 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 334406015339 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 334406015340 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 334406015341 Predicted transcriptional regulators [Transcription]; Region: COG1733 334406015342 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 334406015343 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 334406015344 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 334406015345 substrate binding site [chemical binding]; other site 334406015346 catalytic Zn binding site [ion binding]; other site 334406015347 NAD binding site [chemical binding]; other site 334406015348 structural Zn binding site [ion binding]; other site 334406015349 dimer interface [polypeptide binding]; other site 334406015350 S-formylglutathione hydrolase; Region: PLN02442 334406015351 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 334406015352 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 334406015353 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 334406015354 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 334406015355 ATP-grasp domain; Region: ATP-grasp_4; cl17255 334406015356 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 334406015357 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 334406015358 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 334406015359 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 334406015360 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 334406015361 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015362 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015363 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015364 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015365 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015366 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015367 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015368 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015369 Domain of unknown function DUF11; Region: DUF11; cl17728 334406015370 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015371 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015372 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015373 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015374 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015375 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015376 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015377 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015378 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015379 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015380 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015381 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015382 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015383 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015384 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015385 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015386 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015387 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015388 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015389 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015390 conserved repeat domain; Region: B_ant_repeat; TIGR01451 334406015391 Isochorismatase family; Region: Isochorismatase; pfam00857 334406015392 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 334406015393 catalytic triad [active] 334406015394 conserved cis-peptide bond; other site 334406015395 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 334406015396 putative active site [active] 334406015397 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334406015398 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 334406015399 active site 334406015400 phosphorylation site [posttranslational modification] 334406015401 intermolecular recognition site; other site 334406015402 dimerization interface [polypeptide binding]; other site 334406015403 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 334406015404 DNA binding site [nucleotide binding] 334406015405 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334406015406 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 334406015407 dimerization interface [polypeptide binding]; other site 334406015408 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 334406015409 dimer interface [polypeptide binding]; other site 334406015410 phosphorylation site [posttranslational modification] 334406015411 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 334406015412 ATP binding site [chemical binding]; other site 334406015413 Mg2+ binding site [ion binding]; other site 334406015414 G-X-G motif; other site 334406015415 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 334406015416 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 334406015417 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 334406015418 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 334406015419 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 334406015420 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 334406015421 active site 334406015422 DNA binding site [nucleotide binding] 334406015423 Int/Topo IB signature motif; other site 334406015424 Tetratricopeptide repeat; Region: TPR_12; pfam13424 334406015425 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 334406015426 TPR motif; other site 334406015427 binding surface 334406015428 bacterial Hfq-like; Region: Hfq; cd01716 334406015429 hexamer interface [polypeptide binding]; other site 334406015430 Sm1 motif; other site 334406015431 RNA binding site [nucleotide binding]; other site 334406015432 Sm2 motif; other site 334406015433 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 334406015434 dimerization interface [polypeptide binding]; other site 334406015435 putative DNA binding site [nucleotide binding]; other site 334406015436 putative Zn2+ binding site [ion binding]; other site 334406015437 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 334406015438 Staphylococcal nuclease homologues; Region: SNc; smart00318 334406015439 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 334406015440 Catalytic site; other site 334406015441 DNA topoisomerase III; Provisional; Region: PRK07726 334406015442 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 334406015443 active site 334406015444 putative interdomain interaction site [polypeptide binding]; other site 334406015445 putative metal-binding site [ion binding]; other site 334406015446 putative nucleotide binding site [chemical binding]; other site 334406015447 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 334406015448 domain I; other site 334406015449 DNA binding groove [nucleotide binding] 334406015450 phosphate binding site [ion binding]; other site 334406015451 domain II; other site 334406015452 domain III; other site 334406015453 nucleotide binding site [chemical binding]; other site 334406015454 catalytic site [active] 334406015455 domain IV; other site 334406015456 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 334406015457 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 334406015458 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 334406015459 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 334406015460 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 334406015461 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 334406015462 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 334406015463 motif II; other site 334406015464 Helix-turn-helix domain; Region: HTH_36; pfam13730 334406015465 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076