-- dump date 20140618_223456 -- class Genbank::misc_feature -- table misc_feature_note -- id note 224308000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 224308000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 224308000003 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 224308000004 Walker A motif; other site 224308000005 ATP binding site [chemical binding]; other site 224308000006 Walker B motif; other site 224308000007 arginine finger; other site 224308000008 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 224308000009 DnaA box-binding interface [nucleotide binding]; other site 224308000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 224308000011 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 224308000012 putative DNA binding surface [nucleotide binding]; other site 224308000013 dimer interface [polypeptide binding]; other site 224308000014 beta-clamp/clamp loader binding surface; other site 224308000015 beta-clamp/translesion DNA polymerase binding surface; other site 224308000016 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 224308000017 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 224308000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 224308000019 Walker A/P-loop; other site 224308000020 ATP binding site [chemical binding]; other site 224308000021 Q-loop/lid; other site 224308000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224308000023 ABC transporter signature motif; other site 224308000024 Walker B; other site 224308000025 D-loop; other site 224308000026 H-loop/switch region; other site 224308000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 224308000028 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 224308000029 ATP binding site [chemical binding]; other site 224308000030 Mg2+ binding site [ion binding]; other site 224308000031 G-X-G motif; other site 224308000032 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 224308000033 anchoring element; other site 224308000034 dimer interface [polypeptide binding]; other site 224308000035 ATP binding site [chemical binding]; other site 224308000036 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 224308000037 active site 224308000038 putative metal-binding site [ion binding]; other site 224308000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 224308000040 DNA gyrase subunit A; Validated; Region: PRK05560 224308000041 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 224308000042 CAP-like domain; other site 224308000043 active site 224308000044 primary dimer interface [polypeptide binding]; other site 224308000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224308000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224308000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224308000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224308000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224308000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224308000051 YaaC-like Protein; Region: YaaC; pfam14175 224308000052 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 224308000053 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 224308000054 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 224308000055 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 224308000056 active site 224308000057 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 224308000058 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 224308000059 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 224308000060 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 224308000061 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 224308000062 active site 224308000063 multimer interface [polypeptide binding]; other site 224308000064 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 224308000065 Glutamine amidotransferase class-I; Region: GATase; pfam00117 224308000066 predicted active site [active] 224308000067 catalytic triad [active] 224308000068 seryl-tRNA synthetase; Provisional; Region: PRK05431 224308000069 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 224308000070 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 224308000071 dimer interface [polypeptide binding]; other site 224308000072 active site 224308000073 motif 1; other site 224308000074 motif 2; other site 224308000075 motif 3; other site 224308000076 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 224308000077 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 224308000078 Substrate-binding site [chemical binding]; other site 224308000079 Substrate specificity [chemical binding]; other site 224308000080 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 224308000081 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 224308000082 Substrate-binding site [chemical binding]; other site 224308000083 Substrate specificity [chemical binding]; other site 224308000084 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 224308000085 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308000086 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308000087 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 224308000088 active site 224308000089 Isochorismatase family; Region: Isochorismatase; pfam00857 224308000090 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 224308000091 catalytic triad [active] 224308000092 conserved cis-peptide bond; other site 224308000093 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 224308000094 nucleoside/Zn binding site; other site 224308000095 dimer interface [polypeptide binding]; other site 224308000096 catalytic motif [active] 224308000097 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 224308000098 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 224308000099 Walker A motif; other site 224308000100 ATP binding site [chemical binding]; other site 224308000101 Walker B motif; other site 224308000102 arginine finger; other site 224308000103 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 224308000104 hypothetical protein; Validated; Region: PRK00153 224308000105 recombination protein RecR; Reviewed; Region: recR; PRK00076 224308000106 RecR protein; Region: RecR; pfam02132 224308000107 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 224308000108 putative active site [active] 224308000109 putative metal-binding site [ion binding]; other site 224308000110 tetramer interface [polypeptide binding]; other site 224308000111 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 224308000112 pro-sigmaK processing inhibitor BofA; Region: spore_BofA; TIGR02862 224308000113 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 224308000114 5-bromo-4-chloroindolyl phosphate hydrolysis protein [General function prediction only]; Region: XpaC; COG4915 224308000115 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 224308000116 Orn/Lys/Arg decarboxylase, major domain; Region: OKR_DC_1; pfam01276 224308000117 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 224308000118 homodimer interface [polypeptide binding]; other site 224308000119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308000120 catalytic residue [active] 224308000121 thymidylate kinase; Validated; Region: tmk; PRK00698 224308000122 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 224308000123 TMP-binding site; other site 224308000124 ATP-binding site [chemical binding]; other site 224308000125 Protein of unknown function (DUF970); Region: DUF970; pfam06153 224308000126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1728 224308000127 DNA polymerase III subunit delta'; Validated; Region: PRK08058 224308000128 DNA polymerase III subunit delta'; Validated; Region: PRK08485 224308000129 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 224308000130 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 224308000131 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 224308000132 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 224308000133 S-adenosylmethionine binding site [chemical binding]; other site 224308000134 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 224308000135 GIY-YIG motif/motif A; other site 224308000136 putative active site [active] 224308000137 putative metal binding site [ion binding]; other site 224308000138 Predicted methyltransferases [General function prediction only]; Region: COG0313 224308000139 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 224308000140 putative SAM binding site [chemical binding]; other site 224308000141 putative homodimer interface [polypeptide binding]; other site 224308000142 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 224308000143 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 224308000144 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 224308000145 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 224308000146 active site 224308000147 HIGH motif; other site 224308000148 KMSKS motif; other site 224308000149 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 224308000150 tRNA binding surface [nucleotide binding]; other site 224308000151 anticodon binding site; other site 224308000152 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 224308000153 dimer interface [polypeptide binding]; other site 224308000154 putative tRNA-binding site [nucleotide binding]; other site 224308000155 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 224308000156 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 224308000157 active site 224308000158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 224308000159 Domain of unknown function (DUF348); Region: DUF348; pfam03990 224308000160 Domain of unknown function (DUF348); Region: DUF348; pfam03990 224308000161 Domain of unknown function (DUF348); Region: DUF348; pfam03990 224308000162 G5 domain; Region: G5; pfam07501 224308000163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 224308000164 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 224308000165 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 224308000166 putative active site [active] 224308000167 putative metal binding site [ion binding]; other site 224308000168 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 224308000169 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 224308000170 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 224308000171 S-adenosylmethionine binding site [chemical binding]; other site 224308000172 sporulation peptidase YabG; Region: spore_yabG; TIGR02855 224308000173 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 224308000174 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 224308000175 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 224308000176 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 224308000177 pur operon repressor; Provisional; Region: PRK09213 224308000178 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 224308000179 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224308000180 active site 224308000181 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 224308000182 homotrimer interaction site [polypeptide binding]; other site 224308000183 putative active site [active] 224308000184 regulatory protein SpoVG; Reviewed; Region: PRK13259 224308000185 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 224308000186 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 224308000187 Substrate binding site; other site 224308000188 Mg++ binding site; other site 224308000189 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 224308000190 active site 224308000191 substrate binding site [chemical binding]; other site 224308000192 CoA binding site [chemical binding]; other site 224308000193 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 224308000194 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 224308000195 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224308000196 active site 224308000197 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 224308000198 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 224308000199 5S rRNA interface [nucleotide binding]; other site 224308000200 CTC domain interface [polypeptide binding]; other site 224308000201 L16 interface [polypeptide binding]; other site 224308000202 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 224308000203 putative active site [active] 224308000204 catalytic residue [active] 224308000205 Protein of unknown function (DUF2757); Region: DUF2757; pfam10955 224308000206 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 224308000207 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 224308000208 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 224308000209 ATP binding site [chemical binding]; other site 224308000210 putative Mg++ binding site [ion binding]; other site 224308000211 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 224308000212 nucleotide binding region [chemical binding]; other site 224308000213 ATP-binding site [chemical binding]; other site 224308000214 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 224308000215 stage V sporulation protein T; Region: spore_V_T; TIGR02851 224308000216 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 224308000217 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 224308000218 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 224308000219 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 224308000220 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 224308000221 putative SAM binding site [chemical binding]; other site 224308000222 putative homodimer interface [polypeptide binding]; other site 224308000223 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 224308000224 homodimer interface [polypeptide binding]; other site 224308000225 metal binding site [ion binding]; metal-binding site 224308000226 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 224308000227 homodimer interface [polypeptide binding]; other site 224308000228 active site 224308000229 putative chemical substrate binding site [chemical binding]; other site 224308000230 metal binding site [ion binding]; metal-binding site 224308000231 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 224308000232 RNA binding surface [nucleotide binding]; other site 224308000233 sporulation protein YabP; Region: spore_yabP; TIGR02892 224308000234 spore cortex biosynthesis protein YabQ; Region: spore_yabQ; TIGR02893 224308000235 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 224308000236 Septum formation initiator; Region: DivIC; pfam04977 224308000237 hypothetical protein; Provisional; Region: PRK08582 224308000238 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 224308000239 RNA binding site [nucleotide binding]; other site 224308000240 stage II sporulation protein E; Region: spore_II_E; TIGR02865 224308000241 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 224308000242 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 224308000243 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 224308000244 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; cl00057 224308000245 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 224308000246 metal ion-dependent adhesion site (MIDAS); other site 224308000247 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 224308000248 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 224308000249 active site 224308000250 ATP binding site [chemical binding]; other site 224308000251 substrate binding site [chemical binding]; other site 224308000252 activation loop (A-loop); other site 224308000253 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 224308000254 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 224308000255 Ligand Binding Site [chemical binding]; other site 224308000256 TilS substrate binding domain; Region: TilS; pfam09179 224308000257 TilS substrate C-terminal domain; Region: TilS_C; smart00977 224308000258 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224308000259 active site 224308000260 FtsH Extracellular; Region: FtsH_ext; pfam06480 224308000261 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 224308000262 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 224308000263 Walker A motif; other site 224308000264 ATP binding site [chemical binding]; other site 224308000265 Walker B motif; other site 224308000266 arginine finger; other site 224308000267 Peptidase family M41; Region: Peptidase_M41; pfam01434 224308000268 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 224308000269 nucleotide binding site [chemical binding]; other site 224308000270 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 224308000271 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 224308000272 dimerization interface [polypeptide binding]; other site 224308000273 domain crossover interface; other site 224308000274 redox-dependent activation switch; other site 224308000275 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 224308000276 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 224308000277 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 224308000278 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 224308000279 dimer interface [polypeptide binding]; other site 224308000280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308000281 catalytic residue [active] 224308000282 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 224308000283 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 224308000284 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 224308000285 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 224308000286 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 224308000287 glutamine binding [chemical binding]; other site 224308000288 catalytic triad [active] 224308000289 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 224308000290 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 224308000291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308000292 catalytic residue [active] 224308000293 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 224308000294 dihydropteroate synthase; Region: DHPS; TIGR01496 224308000295 substrate binding pocket [chemical binding]; other site 224308000296 dimer interface [polypeptide binding]; other site 224308000297 inhibitor binding site; inhibition site 224308000298 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 224308000299 homooctamer interface [polypeptide binding]; other site 224308000300 active site 224308000301 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 224308000302 catalytic center binding site [active] 224308000303 ATP binding site [chemical binding]; other site 224308000304 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224308000305 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 224308000306 non-specific DNA binding site [nucleotide binding]; other site 224308000307 salt bridge; other site 224308000308 sequence-specific DNA binding site [nucleotide binding]; other site 224308000309 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 224308000310 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 224308000311 FMN binding site [chemical binding]; other site 224308000312 active site 224308000313 catalytic residues [active] 224308000314 substrate binding site [chemical binding]; other site 224308000315 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 224308000316 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 224308000317 dimer interface [polypeptide binding]; other site 224308000318 putative anticodon binding site; other site 224308000319 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 224308000320 motif 1; other site 224308000321 active site 224308000322 motif 2; other site 224308000323 motif 3; other site 224308000324 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 224308000325 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 224308000326 UvrB/uvrC motif; Region: UVR; pfam02151 224308000327 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 224308000328 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 224308000329 ADP binding site [chemical binding]; other site 224308000330 phosphagen binding site; other site 224308000331 substrate specificity loop; other site 224308000332 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 224308000333 Clp amino terminal domain; Region: Clp_N; pfam02861 224308000334 Clp amino terminal domain; Region: Clp_N; pfam02861 224308000335 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 224308000336 Walker A motif; other site 224308000337 ATP binding site [chemical binding]; other site 224308000338 Walker B motif; other site 224308000339 arginine finger; other site 224308000340 UvrB/uvrC motif; Region: UVR; pfam02151 224308000341 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 224308000342 Walker A motif; other site 224308000343 ATP binding site [chemical binding]; other site 224308000344 Walker B motif; other site 224308000345 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 224308000346 DNA repair protein RadA; Provisional; Region: PRK11823 224308000347 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 224308000348 Walker A motif/ATP binding site; other site 224308000349 ATP binding site [chemical binding]; other site 224308000350 Walker B motif; other site 224308000351 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 224308000352 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 224308000353 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 224308000354 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 224308000355 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 224308000356 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 224308000357 putative active site [active] 224308000358 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 224308000359 substrate binding site; other site 224308000360 dimer interface; other site 224308000361 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 224308000362 homotrimer interaction site [polypeptide binding]; other site 224308000363 zinc binding site [ion binding]; other site 224308000364 CDP-binding sites; other site 224308000365 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 224308000366 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 224308000367 active site 224308000368 HIGH motif; other site 224308000369 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 224308000370 active site 224308000371 KMSKS motif; other site 224308000372 serine O-acetyltransferase; Region: cysE; TIGR01172 224308000373 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 224308000374 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 224308000375 trimer interface [polypeptide binding]; other site 224308000376 active site 224308000377 substrate binding site [chemical binding]; other site 224308000378 CoA binding site [chemical binding]; other site 224308000379 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 224308000380 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 224308000381 active site 224308000382 HIGH motif; other site 224308000383 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 224308000384 KMSKS motif; other site 224308000385 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 224308000386 tRNA binding surface [nucleotide binding]; other site 224308000387 anticodon binding site; other site 224308000388 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 224308000389 active site 224308000390 metal binding site [ion binding]; metal-binding site 224308000391 dimerization interface [polypeptide binding]; other site 224308000392 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 224308000393 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 224308000394 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 224308000395 Predicted RNA-binding protein containing a PIN domain [General function prediction only]; Region: COG3688 224308000396 RNA polymerase factor sigma-70; Validated; Region: PRK08295 224308000397 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308000398 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 224308000399 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 224308000400 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 224308000401 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 224308000402 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 224308000403 putative homodimer interface [polypeptide binding]; other site 224308000404 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 224308000405 heterodimer interface [polypeptide binding]; other site 224308000406 homodimer interface [polypeptide binding]; other site 224308000407 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 224308000408 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 224308000409 23S rRNA interface [nucleotide binding]; other site 224308000410 L7/L12 interface [polypeptide binding]; other site 224308000411 putative thiostrepton binding site; other site 224308000412 L25 interface [polypeptide binding]; other site 224308000413 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 224308000414 mRNA/rRNA interface [nucleotide binding]; other site 224308000415 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 224308000416 23S rRNA interface [nucleotide binding]; other site 224308000417 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 224308000418 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 224308000419 core dimer interface [polypeptide binding]; other site 224308000420 peripheral dimer interface [polypeptide binding]; other site 224308000421 L10 interface [polypeptide binding]; other site 224308000422 L11 interface [polypeptide binding]; other site 224308000423 putative EF-Tu interaction site [polypeptide binding]; other site 224308000424 putative EF-G interaction site [polypeptide binding]; other site 224308000425 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 224308000426 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 224308000427 S-adenosylmethionine binding site [chemical binding]; other site 224308000428 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 224308000429 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 224308000430 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 224308000431 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 224308000432 RPB1 interaction site [polypeptide binding]; other site 224308000433 RPB10 interaction site [polypeptide binding]; other site 224308000434 RPB11 interaction site [polypeptide binding]; other site 224308000435 RPB3 interaction site [polypeptide binding]; other site 224308000436 RPB12 interaction site [polypeptide binding]; other site 224308000437 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 224308000438 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 224308000439 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 224308000440 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 224308000441 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 224308000442 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 224308000443 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 224308000444 G-loop; other site 224308000445 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 224308000446 DNA binding site [nucleotide binding] 224308000447 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 224308000448 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 224308000449 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 224308000450 S17 interaction site [polypeptide binding]; other site 224308000451 S8 interaction site; other site 224308000452 16S rRNA interaction site [nucleotide binding]; other site 224308000453 streptomycin interaction site [chemical binding]; other site 224308000454 23S rRNA interaction site [nucleotide binding]; other site 224308000455 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 224308000456 30S ribosomal protein S7; Validated; Region: PRK05302 224308000457 elongation factor G; Reviewed; Region: PRK00007 224308000458 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 224308000459 G1 box; other site 224308000460 putative GEF interaction site [polypeptide binding]; other site 224308000461 GTP/Mg2+ binding site [chemical binding]; other site 224308000462 Switch I region; other site 224308000463 G2 box; other site 224308000464 G3 box; other site 224308000465 Switch II region; other site 224308000466 G4 box; other site 224308000467 G5 box; other site 224308000468 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 224308000469 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 224308000470 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 224308000471 elongation factor Tu; Reviewed; Region: PRK00049 224308000472 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 224308000473 G1 box; other site 224308000474 GEF interaction site [polypeptide binding]; other site 224308000475 GTP/Mg2+ binding site [chemical binding]; other site 224308000476 Switch I region; other site 224308000477 G2 box; other site 224308000478 G3 box; other site 224308000479 Switch II region; other site 224308000480 G4 box; other site 224308000481 G5 box; other site 224308000482 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 224308000483 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 224308000484 Antibiotic Binding Site [chemical binding]; other site 224308000485 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 224308000486 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 224308000487 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 224308000488 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 224308000489 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 224308000490 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 224308000491 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 224308000492 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 224308000493 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 224308000494 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 224308000495 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 224308000496 putative translocon binding site; other site 224308000497 protein-rRNA interface [nucleotide binding]; other site 224308000498 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 224308000499 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 224308000500 G-X-X-G motif; other site 224308000501 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 224308000502 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 224308000503 23S rRNA interface [nucleotide binding]; other site 224308000504 5S rRNA interface [nucleotide binding]; other site 224308000505 putative antibiotic binding site [chemical binding]; other site 224308000506 L25 interface [polypeptide binding]; other site 224308000507 L27 interface [polypeptide binding]; other site 224308000508 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 224308000509 23S rRNA interface [nucleotide binding]; other site 224308000510 putative translocon interaction site; other site 224308000511 signal recognition particle (SRP54) interaction site; other site 224308000512 L23 interface [polypeptide binding]; other site 224308000513 trigger factor interaction site; other site 224308000514 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 224308000515 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 224308000516 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 224308000517 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 224308000518 RNA binding site [nucleotide binding]; other site 224308000519 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 224308000520 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 224308000521 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 224308000522 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 224308000523 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 224308000524 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 224308000525 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 224308000526 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 224308000527 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 224308000528 5S rRNA interface [nucleotide binding]; other site 224308000529 L27 interface [polypeptide binding]; other site 224308000530 23S rRNA interface [nucleotide binding]; other site 224308000531 L5 interface [polypeptide binding]; other site 224308000532 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 224308000533 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 224308000534 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 224308000535 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 224308000536 23S rRNA binding site [nucleotide binding]; other site 224308000537 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 224308000538 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 224308000539 SecY translocase; Region: SecY; pfam00344 224308000540 adenylate kinase; Reviewed; Region: adk; PRK00279 224308000541 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 224308000542 AMP-binding site [chemical binding]; other site 224308000543 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 224308000544 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 224308000545 active site 224308000546 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 224308000547 RNA binding site [nucleotide binding]; other site 224308000548 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 224308000549 rRNA binding site [nucleotide binding]; other site 224308000550 predicted 30S ribosome binding site; other site 224308000551 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 224308000552 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 224308000553 30S ribosomal protein S13; Region: bact_S13; TIGR03631 224308000554 30S ribosomal protein S11; Validated; Region: PRK05309 224308000555 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 224308000556 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 224308000557 alphaNTD homodimer interface [polypeptide binding]; other site 224308000558 alphaNTD - beta interaction site [polypeptide binding]; other site 224308000559 alphaNTD - beta' interaction site [polypeptide binding]; other site 224308000560 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 224308000561 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 224308000562 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 224308000563 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 224308000564 Walker A/P-loop; other site 224308000565 ATP binding site [chemical binding]; other site 224308000566 Q-loop/lid; other site 224308000567 ABC transporter signature motif; other site 224308000568 Walker B; other site 224308000569 D-loop; other site 224308000570 H-loop/switch region; other site 224308000571 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 224308000572 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 224308000573 Walker A/P-loop; other site 224308000574 ATP binding site [chemical binding]; other site 224308000575 Q-loop/lid; other site 224308000576 ABC transporter signature motif; other site 224308000577 Walker B; other site 224308000578 D-loop; other site 224308000579 H-loop/switch region; other site 224308000580 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 224308000581 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 224308000582 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 224308000583 dimerization interface 3.5A [polypeptide binding]; other site 224308000584 active site 224308000585 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 224308000586 23S rRNA interface [nucleotide binding]; other site 224308000587 L3 interface [polypeptide binding]; other site 224308000588 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 224308000589 Methyltransferase domain; Region: Methyltransf_31; pfam13847 224308000590 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 224308000591 S-adenosylmethionine binding site [chemical binding]; other site 224308000592 Protein of unknown function (DUF2521); Region: DUF2521; pfam10730 224308000593 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 224308000594 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 224308000595 active site 224308000596 metal binding site [ion binding]; metal-binding site 224308000597 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 224308000598 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 224308000599 KinB-signalling pathway activation in sporulation; Region: KbaA; pfam14089 224308000600 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 224308000601 Putative catalytic NodB homology domain of Bacillus subtilis putative polysaccharide deacetylase PdaB, and its bacterial homologs; Region: CE4_BsPdaB_like; cd10949 224308000602 NodB motif; other site 224308000603 putative active site [active] 224308000604 putative catalytic site [active] 224308000605 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 224308000606 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 224308000607 Sulfate transporter family; Region: Sulfate_transp; pfam00916 224308000608 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 224308000609 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 224308000610 Sodium Bile acid symporter family; Region: SBF; cl17470 224308000611 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 224308000612 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 224308000613 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 224308000614 dimer interface [polypeptide binding]; other site 224308000615 putative PBP binding regions; other site 224308000616 ABC-ATPase subunit interface; other site 224308000617 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 224308000618 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 224308000619 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 224308000620 ABC-ATPase subunit interface; other site 224308000621 dimer interface [polypeptide binding]; other site 224308000622 putative PBP binding regions; other site 224308000623 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 224308000624 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 224308000625 putative ligand binding residues [chemical binding]; other site 224308000626 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 224308000627 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308000628 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 224308000629 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 224308000630 putative ligand binding residues [chemical binding]; other site 224308000631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3876 224308000632 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 224308000633 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 224308000634 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 224308000635 putative periplasmic esterase; Provisional; Region: PRK03642 224308000636 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 224308000637 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 224308000638 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 224308000639 active site turn [active] 224308000640 phosphorylation site [posttranslational modification] 224308000641 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 224308000642 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 224308000643 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 224308000644 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 224308000645 putative active site [active] 224308000646 N-acetylmuramic acid 6-phosphate etherase; Region: TIGR00274 224308000647 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 224308000648 putative active site [active] 224308000649 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 224308000650 Uncharacterized conserved protein [Function unknown]; Region: COG1683 224308000651 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 224308000652 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308000653 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 224308000654 DNA binding residues [nucleotide binding] 224308000655 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 224308000656 Putative zinc-finger; Region: zf-HC2; pfam13490 224308000657 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 224308000658 Uncharacterized conserved protein [Function unknown]; Region: COG1624 224308000659 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 224308000660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 224308000661 YbbR-like protein; Region: YbbR; pfam07949 224308000662 YbbR-like protein; Region: YbbR; pfam07949 224308000663 YbbR-like protein; Region: YbbR; pfam07949 224308000664 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 224308000665 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 224308000666 active site 224308000667 substrate binding site [chemical binding]; other site 224308000668 metal binding site [ion binding]; metal-binding site 224308000669 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 224308000670 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 224308000671 glutaminase active site [active] 224308000672 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 224308000673 dimer interface [polypeptide binding]; other site 224308000674 active site 224308000675 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 224308000676 dimer interface [polypeptide binding]; other site 224308000677 active site 224308000678 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 224308000679 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 224308000680 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 224308000681 minor groove reading motif; other site 224308000682 helix-hairpin-helix signature motif; other site 224308000683 substrate binding pocket [chemical binding]; other site 224308000684 active site 224308000685 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 224308000686 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 224308000687 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308000688 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308000689 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 224308000690 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 224308000691 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 224308000692 DNA binding site [nucleotide binding] 224308000693 active site 224308000694 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 224308000695 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 224308000696 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 224308000697 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 224308000698 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: CynT; COG0288 224308000699 zinc binding site [ion binding]; other site 224308000700 Uncharacterized conserved protein [Function unknown]; Region: COG5609 224308000701 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 224308000702 dimerization interface [polypeptide binding]; other site 224308000703 putative DNA binding site [nucleotide binding]; other site 224308000704 putative Zn2+ binding site [ion binding]; other site 224308000705 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 224308000706 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 224308000707 putative substrate translocation pore; other site 224308000708 Glucosamine 6-phosphate synthetase, contains amidotransferase and phosphosugar isomerase domains [Cell envelope biogenesis, outer membrane]; Region: GlmS; COG0449 224308000709 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 224308000710 Radical SAM superfamily; Region: Radical_SAM; pfam04055 224308000711 FeS/SAM binding site; other site 224308000712 CAAX protease self-immunity; Region: Abi; pfam02517 224308000713 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 224308000714 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 224308000715 Walker A/P-loop; other site 224308000716 ATP binding site [chemical binding]; other site 224308000717 Q-loop/lid; other site 224308000718 ABC transporter signature motif; other site 224308000719 Walker B; other site 224308000720 D-loop; other site 224308000721 H-loop/switch region; other site 224308000722 HEAT repeats; Region: HEAT_2; pfam13646 224308000723 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 224308000724 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 224308000725 catalytic residues [active] 224308000726 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 224308000727 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224308000728 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 224308000729 active site 224308000730 phosphorylation site [posttranslational modification] 224308000731 intermolecular recognition site; other site 224308000732 dimerization interface [polypeptide binding]; other site 224308000733 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 224308000734 DNA binding site [nucleotide binding] 224308000735 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224308000736 HAMP domain; Region: HAMP; pfam00672 224308000737 dimerization interface [polypeptide binding]; other site 224308000738 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 224308000739 dimer interface [polypeptide binding]; other site 224308000740 phosphorylation site [posttranslational modification] 224308000741 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 224308000742 ATP binding site [chemical binding]; other site 224308000743 Mg2+ binding site [ion binding]; other site 224308000744 G-X-G motif; other site 224308000745 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 224308000746 active site 224308000747 ATP binding site [chemical binding]; other site 224308000748 substrate binding site [chemical binding]; other site 224308000749 activation loop (A-loop); other site 224308000750 putative transport protein YifK; Provisional; Region: PRK10746 224308000751 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 224308000752 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 224308000753 Cytochrome P450; Region: p450; cl12078 224308000754 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 224308000755 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 224308000756 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 224308000757 active site 224308000758 catalytic site [active] 224308000759 metal binding site [ion binding]; metal-binding site 224308000760 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 224308000761 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 224308000762 putative substrate translocation pore; other site 224308000763 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 224308000764 Protein of unknown function (DUF2651); Region: DUF2651; pfam10852 224308000765 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308000766 MarR family; Region: MarR; pfam01047 224308000767 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 224308000768 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308000769 Coenzyme A binding pocket [chemical binding]; other site 224308000770 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 224308000771 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308000772 putative substrate translocation pore; other site 224308000773 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 224308000774 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224308000775 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 224308000776 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224308000777 BacA is a bacterial lysin from Enterococcus faecalis that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. BacA is homologous to the YbfG and YkuG lysins of...; Region: GH25_BacA-like; cd06418 224308000778 active site 224308000779 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224308000780 EamA-like transporter family; Region: EamA; pfam00892 224308000781 EamA-like transporter family; Region: EamA; pfam00892 224308000782 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 224308000783 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308000784 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 224308000785 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308000786 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 224308000787 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 224308000788 ATP-grasp domain; Region: ATP-grasp; pfam02222 224308000789 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 224308000790 Protein of unknown function (DUF2606); Region: DUF2606; pfam10794 224308000791 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 224308000792 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 224308000793 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 224308000794 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 224308000795 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 224308000796 phosphatidylserine decarboxylase; Provisional; Region: PRK03140 224308000797 Erythromycin esterase homolog [General function prediction only]; Region: COG2312 224308000798 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 224308000799 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308000800 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 224308000801 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 224308000802 active site residue [active] 224308000803 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 224308000804 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 224308000805 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 224308000806 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 224308000807 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 224308000808 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 224308000809 active site turn [active] 224308000810 phosphorylation site [posttranslational modification] 224308000811 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 224308000812 HPr interaction site; other site 224308000813 glycerol kinase (GK) interaction site [polypeptide binding]; other site 224308000814 active site 224308000815 phosphorylation site [posttranslational modification] 224308000816 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 224308000817 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 224308000818 active site 224308000819 trimer interface [polypeptide binding]; other site 224308000820 allosteric site; other site 224308000821 active site lid [active] 224308000822 hexamer (dimer of trimers) interface [polypeptide binding]; other site 224308000823 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 224308000824 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308000825 DNA-binding site [nucleotide binding]; DNA binding site 224308000826 UTRA domain; Region: UTRA; pfam07702 224308000827 Predicted integral membrane protein [Function unknown]; Region: COG5658 224308000828 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 224308000829 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 224308000830 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 224308000831 homodimer interface [polypeptide binding]; other site 224308000832 substrate-cofactor binding pocket; other site 224308000833 catalytic residue [active] 224308000834 S-methylmethionine transporter; Provisional; Region: PRK11387 224308000835 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 224308000836 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 224308000837 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 224308000838 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 224308000839 glutaminase; Reviewed; Region: PRK12357 224308000840 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 224308000841 Chorismate mutase type II; Region: CM_2; cl00693 224308000842 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224308000843 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 224308000844 ATP binding site [chemical binding]; other site 224308000845 Mg2+ binding site [ion binding]; other site 224308000846 G-X-G motif; other site 224308000847 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 224308000848 Response regulator receiver domain; Region: Response_reg; pfam00072 224308000849 active site 224308000850 phosphorylation site [posttranslational modification] 224308000851 intermolecular recognition site; other site 224308000852 dimerization interface [polypeptide binding]; other site 224308000853 YcbB domain; Region: YcbB; pfam08664 224308000854 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 224308000855 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 224308000856 putative active site [active] 224308000857 catalytic residue [active] 224308000858 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 224308000859 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 224308000860 NAD(P) binding site [chemical binding]; other site 224308000861 catalytic residues [active] 224308000862 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 224308000863 D-galactonate transporter; Region: 2A0114; TIGR00893 224308000864 putative substrate translocation pore; other site 224308000865 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 224308000866 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 224308000867 active site 224308000868 tetramer interface [polypeptide binding]; other site 224308000869 Transcriptional regulators [Transcription]; Region: FadR; COG2186 224308000870 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308000871 DNA-binding site [nucleotide binding]; DNA binding site 224308000872 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 224308000873 galactarate dehydratase; Region: galactar-dH20; TIGR03248 224308000874 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 224308000875 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 224308000876 Macrolide 2'-Phosphotransferase (MPH2'). MPH2' is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase; Region: MPH2' cd05152 224308000877 putative active site [active] 224308000878 putative substrate binding site [chemical binding]; other site 224308000879 Phosphotransferase enzyme family; Region: APH; pfam01636 224308000880 ATP binding site [chemical binding]; other site 224308000881 anti-TRAP (AT) protein specific to Bacilli; Region: anti-TRAP; cd10748 224308000882 dodecamer interface 1 [polypeptide binding]; other site 224308000883 dodecamer interface 2 [polypeptide binding]; other site 224308000884 trimer interface [polypeptide binding]; other site 224308000885 TRAP binding interface [polypeptide binding]; other site 224308000886 Zn binding site [ion binding]; other site 224308000887 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224308000888 EamA-like transporter family; Region: EamA; pfam00892 224308000889 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224308000890 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 224308000891 active site 224308000892 phosphorylation site [posttranslational modification] 224308000893 intermolecular recognition site; other site 224308000894 dimerization interface [polypeptide binding]; other site 224308000895 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 224308000896 DNA binding site [nucleotide binding] 224308000897 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224308000898 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 224308000899 dimer interface [polypeptide binding]; other site 224308000900 phosphorylation site [posttranslational modification] 224308000901 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 224308000902 ATP binding site [chemical binding]; other site 224308000903 Mg2+ binding site [ion binding]; other site 224308000904 G-X-G motif; other site 224308000905 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 224308000906 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 224308000907 Walker A/P-loop; other site 224308000908 ATP binding site [chemical binding]; other site 224308000909 Q-loop/lid; other site 224308000910 ABC transporter signature motif; other site 224308000911 Walker B; other site 224308000912 D-loop; other site 224308000913 H-loop/switch region; other site 224308000914 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 224308000915 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 224308000916 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 224308000917 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 224308000918 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 224308000919 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 224308000920 metal ion-dependent adhesion site (MIDAS); other site 224308000921 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 224308000922 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 224308000923 putative active site [active] 224308000924 putative metal binding site [ion binding]; other site 224308000925 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 224308000926 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 224308000927 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 224308000928 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 224308000929 putative substrate binding pocket [chemical binding]; other site 224308000930 AC domain interface; other site 224308000931 catalytic triad [active] 224308000932 AB domain interface; other site 224308000933 interchain disulfide; other site 224308000934 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 224308000935 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 224308000936 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224308000937 catalytic residue [active] 224308000938 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 224308000939 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308000940 putative substrate translocation pore; other site 224308000941 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 224308000942 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308000943 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308000944 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 224308000945 active site 224308000946 homotetramer interface [polypeptide binding]; other site 224308000947 homodimer interface [polypeptide binding]; other site 224308000948 Lipase (class 2); Region: Lipase_2; pfam01674 224308000949 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 224308000950 Predicted membrane protein/domain [Function unknown]; Region: COG1714 224308000951 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 224308000952 helix-turn-helix, Psq domain; Region: HTH_psq; pfam05225 224308000953 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 224308000954 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 224308000955 ATP binding site [chemical binding]; other site 224308000956 Mg2+ binding site [ion binding]; other site 224308000957 G-X-G motif; other site 224308000958 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 224308000959 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 224308000960 active site 224308000961 phosphorylation site [posttranslational modification] 224308000962 intermolecular recognition site; other site 224308000963 dimerization interface [polypeptide binding]; other site 224308000964 LytTr DNA-binding domain; Region: LytTR; pfam04397 224308000965 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 224308000966 ATP-binding cassette domain of the Na+ transporter; Region: ABC_NatA_sodium_exporter; cd03266 224308000967 Walker A/P-loop; other site 224308000968 ATP binding site [chemical binding]; other site 224308000969 Q-loop/lid; other site 224308000970 ABC transporter signature motif; other site 224308000971 Walker B; other site 224308000972 D-loop; other site 224308000973 H-loop/switch region; other site 224308000974 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 224308000975 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 224308000976 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 224308000977 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 224308000978 active site 224308000979 catalytic tetrad [active] 224308000980 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 224308000981 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 224308000982 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 224308000983 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 224308000984 binding surface 224308000985 TPR motif; other site 224308000986 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 224308000987 TPR motif; other site 224308000988 Tetratricopeptide repeat; Region: TPR_12; pfam13424 224308000989 binding surface 224308000990 glucose-1-dehydrogenase; Provisional; Region: PRK08936 224308000991 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 224308000992 NAD binding site [chemical binding]; other site 224308000993 homodimer interface [polypeptide binding]; other site 224308000994 active site 224308000995 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 224308000996 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 224308000997 Ca binding site [ion binding]; other site 224308000998 active site 224308000999 catalytic site [active] 224308001000 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 224308001001 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 224308001002 metal binding site [ion binding]; metal-binding site 224308001003 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 224308001004 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 224308001005 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 224308001006 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 224308001007 ABC-ATPase subunit interface; other site 224308001008 dimer interface [polypeptide binding]; other site 224308001009 putative PBP binding regions; other site 224308001010 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 224308001011 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 224308001012 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 224308001013 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 224308001014 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 224308001015 putative metal binding site [ion binding]; other site 224308001016 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 224308001017 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 224308001018 putative metal binding site [ion binding]; other site 224308001019 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 224308001020 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 224308001021 putative metal binding site [ion binding]; other site 224308001022 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 224308001023 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 224308001024 Uncharacterized protein involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TelA; COG3853 224308001025 benzoate transport; Region: 2A0115; TIGR00895 224308001026 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 224308001027 putative substrate translocation pore; other site 224308001028 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 224308001029 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 224308001030 putative substrate translocation pore; other site 224308001031 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 224308001032 dimerization interface [polypeptide binding]; other site 224308001033 putative DNA binding site [nucleotide binding]; other site 224308001034 putative Zn2+ binding site [ion binding]; other site 224308001035 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 224308001036 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 224308001037 Walker A/P-loop; other site 224308001038 ATP binding site [chemical binding]; other site 224308001039 Q-loop/lid; other site 224308001040 ABC transporter signature motif; other site 224308001041 Walker B; other site 224308001042 D-loop; other site 224308001043 H-loop/switch region; other site 224308001044 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 224308001045 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 224308001046 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 224308001047 dimer interface [polypeptide binding]; other site 224308001048 conserved gate region; other site 224308001049 putative PBP binding loops; other site 224308001050 ABC-ATPase subunit interface; other site 224308001051 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 224308001052 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 224308001053 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 224308001054 M20 Peptidase Aminoacylase 1 amhX_like subfamily; Region: M20_Acy1_amhX_like; cd08018 224308001055 amidohydrolase; Region: amidohydrolases; TIGR01891 224308001056 metal binding site [ion binding]; metal-binding site 224308001057 putative dimer interface [polypeptide binding]; other site 224308001058 Predicted membrane protein [Function unknown]; Region: COG1288 224308001059 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 224308001060 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 224308001061 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 224308001062 active site 224308001063 Ca binding site [ion binding]; other site 224308001064 catalytic site [active] 224308001065 Aamy_C domain; Region: Aamy_C; smart00632 224308001066 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 224308001067 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 224308001068 tetramer (dimer of dimers) interface [polypeptide binding]; other site 224308001069 NAD binding site [chemical binding]; other site 224308001070 dimer interface [polypeptide binding]; other site 224308001071 substrate binding site [chemical binding]; other site 224308001072 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 224308001073 L-lactate permease; Region: Lactate_perm; pfam02652 224308001074 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 224308001075 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308001076 putative substrate translocation pore; other site 224308001077 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 224308001078 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308001079 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 224308001080 putative DNA binding site [nucleotide binding]; other site 224308001081 putative Zn2+ binding site [ion binding]; other site 224308001082 LysE type translocator; Region: LysE; pfam01810 224308001083 Uncharacterized conserved protein [Function unknown]; Region: COG3403 224308001084 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 224308001085 Spore germination protein; Region: Spore_permease; cl17796 224308001086 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 224308001087 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 224308001088 NAD+ synthetase; Region: nadE; TIGR00552 224308001089 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 224308001090 homodimer interface [polypeptide binding]; other site 224308001091 NAD binding pocket [chemical binding]; other site 224308001092 ATP binding pocket [chemical binding]; other site 224308001093 Mg binding site [ion binding]; other site 224308001094 active-site loop [active] 224308001095 AAA domain; Region: AAA_17; cl17253 224308001096 AAA domain; Region: AAA_18; pfam13238 224308001097 shikimate kinase; Reviewed; Region: aroK; PRK00131 224308001098 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 224308001099 ADP binding site [chemical binding]; other site 224308001100 magnesium binding site [ion binding]; other site 224308001101 putative shikimate binding site; other site 224308001102 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 224308001103 S-adenosylmethionine binding site [chemical binding]; other site 224308001104 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308001105 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308001106 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 224308001107 dimerization interface [polypeptide binding]; other site 224308001108 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 224308001109 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 224308001110 Proline dehydrogenase; Region: Pro_dh; pfam01619 224308001111 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 224308001112 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 224308001113 Glutamate binding site [chemical binding]; other site 224308001114 homodimer interface [polypeptide binding]; other site 224308001115 NAD binding site [chemical binding]; other site 224308001116 catalytic residues [active] 224308001117 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 224308001118 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 224308001119 Na binding site [ion binding]; other site 224308001120 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 224308001121 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 224308001122 Predicted membrane protein [Function unknown]; Region: COG3689 224308001123 Predicted permeases [General function prediction only]; Region: COG0701 224308001124 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 224308001125 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 224308001126 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 224308001127 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224308001128 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 224308001129 active site 224308001130 SAM binding site [chemical binding]; other site 224308001131 homodimer interface [polypeptide binding]; other site 224308001132 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 224308001133 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 224308001134 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 224308001135 [2Fe-2S] cluster binding site [ion binding]; other site 224308001136 nitrite reductase [NAD(P)H], large subunit; Region: nitri_red_nirB; TIGR02374 224308001137 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224308001138 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 224308001139 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 224308001140 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 224308001141 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 224308001142 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 224308001143 [4Fe-4S] binding site [ion binding]; other site 224308001144 molybdopterin cofactor binding site; other site 224308001145 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 224308001146 molybdopterin cofactor binding site; other site 224308001147 nitrite reductase [NAD(P)H], large subunit; Region: nitri_red_nirB; TIGR02374 224308001148 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224308001149 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 224308001150 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 224308001151 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 224308001152 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 224308001153 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 224308001154 putative substrate translocation pore; other site 224308001155 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 224308001156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 224308001157 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 224308001158 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 224308001159 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 224308001160 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 224308001161 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 224308001162 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 224308001163 dimer interface [polypeptide binding]; other site 224308001164 conserved gate region; other site 224308001165 putative PBP binding loops; other site 224308001166 ABC-ATPase subunit interface; other site 224308001167 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 224308001168 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 224308001169 substrate binding pocket [chemical binding]; other site 224308001170 membrane-bound complex binding site; other site 224308001171 hinge residues; other site 224308001172 RDD family; Region: RDD; pfam06271 224308001173 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 224308001174 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 224308001175 beta-galactosidase; Region: BGL; TIGR03356 224308001176 Competence protein J (ComJ); Region: ComJ; pfam11033 224308001177 Deoxyribonuclease NucA/NucB; Region: DNase_NucA_NucB; pfam14040 224308001178 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 224308001179 dimerization interface [polypeptide binding]; other site 224308001180 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 224308001181 dimer interface [polypeptide binding]; other site 224308001182 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 224308001183 putative CheW interface [polypeptide binding]; other site 224308001184 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 224308001185 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 224308001186 tetramer interface [polypeptide binding]; other site 224308001187 active site 224308001188 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 224308001189 active site 224308001190 dimer interface [polypeptide binding]; other site 224308001191 magnesium binding site [ion binding]; other site 224308001192 Predicted transcriptional regulators [Transcription]; Region: COG1733 224308001193 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 224308001194 Condensation domain; Region: Condensation; pfam00668 224308001195 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308001196 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 224308001197 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 224308001198 acyl-activating enzyme (AAE) consensus motif; other site 224308001199 AMP binding site [chemical binding]; other site 224308001200 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308001201 Condensation domain; Region: Condensation; pfam00668 224308001202 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308001203 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 224308001204 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 224308001205 acyl-activating enzyme (AAE) consensus motif; other site 224308001206 AMP binding site [chemical binding]; other site 224308001207 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308001208 Condensation domain; Region: Condensation; pfam00668 224308001209 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308001210 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 224308001211 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 224308001212 acyl-activating enzyme (AAE) consensus motif; other site 224308001213 AMP binding site [chemical binding]; other site 224308001214 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308001215 Condensation domain; Region: Condensation; pfam00668 224308001216 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308001217 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 224308001218 Condensation domain; Region: Condensation; pfam00668 224308001219 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308001220 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 224308001221 acyl-activating enzyme (AAE) consensus motif; other site 224308001222 AMP binding site [chemical binding]; other site 224308001223 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308001224 Condensation domain; Region: Condensation; pfam00668 224308001225 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308001226 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 224308001227 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 224308001228 acyl-activating enzyme (AAE) consensus motif; other site 224308001229 AMP binding site [chemical binding]; other site 224308001230 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308001231 Condensation domain; Region: Condensation; pfam00668 224308001232 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308001233 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 224308001234 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 224308001235 acyl-activating enzyme (AAE) consensus motif; other site 224308001236 AMP binding site [chemical binding]; other site 224308001237 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308001238 Condensation domain; Region: Condensation; pfam00668 224308001239 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 224308001240 Condensation domain; Region: Condensation; pfam00668 224308001241 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308001242 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 224308001243 acyl-activating enzyme (AAE) consensus motif; other site 224308001244 AMP binding site [chemical binding]; other site 224308001245 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308001246 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 224308001247 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 224308001248 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 224308001249 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 224308001250 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308001251 putative substrate translocation pore; other site 224308001252 YcxB-like protein; Region: YcxB; pfam14317 224308001253 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224308001254 EamA-like transporter family; Region: EamA; pfam00892 224308001255 EamA-like transporter family; Region: EamA; pfam00892 224308001256 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 224308001257 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308001258 DNA-binding site [nucleotide binding]; DNA binding site 224308001259 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 224308001260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308001261 homodimer interface [polypeptide binding]; other site 224308001262 catalytic residue [active] 224308001263 Evidence 1a: Function experimentally demonstrated in the studied strain; PubMedId: 10568751, 17376553, 2848009, 9384377; Product type e: enzyme 224308001264 Evidence 1a: Function experimentally demonstrated in the studied strain; PubMedId: 10568751, 17376553, 2848009, 9384377; Product type e: enzyme 224308001265 Predicted membrane protein [Function unknown]; Region: COG2364 224308001266 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224308001267 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 224308001268 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 224308001269 Walker A/P-loop; other site 224308001270 ATP binding site [chemical binding]; other site 224308001271 Q-loop/lid; other site 224308001272 ABC transporter signature motif; other site 224308001273 Walker B; other site 224308001274 D-loop; other site 224308001275 H-loop/switch region; other site 224308001276 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 224308001277 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 224308001278 dimer interface [polypeptide binding]; other site 224308001279 conserved gate region; other site 224308001280 putative PBP binding loops; other site 224308001281 ABC-ATPase subunit interface; other site 224308001282 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 224308001283 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 224308001284 substrate binding pocket [chemical binding]; other site 224308001285 membrane-bound complex binding site; other site 224308001286 hinge residues; other site 224308001287 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308001288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308001289 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 224308001290 dimerization interface [polypeptide binding]; other site 224308001291 polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases; Region: ubiX_pad; TIGR00421 224308001292 Flavoprotein; Region: Flavoprotein; pfam02441 224308001293 UbiD family decarboxylase; Region: TIGR00148 224308001294 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 224308001295 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 224308001296 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 224308001297 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 224308001298 putative substrate translocation pore; other site 224308001299 POT family; Region: PTR2; pfam00854 224308001300 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 224308001301 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 224308001302 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 224308001303 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 224308001304 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 224308001305 Spore germination protein; Region: Spore_permease; pfam03845 224308001306 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 224308001307 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 224308001308 Walker A/P-loop; other site 224308001309 ATP binding site [chemical binding]; other site 224308001310 Q-loop/lid; other site 224308001311 ABC transporter signature motif; other site 224308001312 Walker B; other site 224308001313 D-loop; other site 224308001314 H-loop/switch region; other site 224308001315 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 224308001316 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 224308001317 FtsX-like permease family; Region: FtsX; pfam02687 224308001318 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224308001319 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 224308001320 active site 224308001321 phosphorylation site [posttranslational modification] 224308001322 intermolecular recognition site; other site 224308001323 dimerization interface [polypeptide binding]; other site 224308001324 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 224308001325 DNA binding site [nucleotide binding] 224308001326 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224308001327 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 224308001328 dimerization interface [polypeptide binding]; other site 224308001329 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 224308001330 dimer interface [polypeptide binding]; other site 224308001331 phosphorylation site [posttranslational modification] 224308001332 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 224308001333 ATP binding site [chemical binding]; other site 224308001334 Mg2+ binding site [ion binding]; other site 224308001335 G-X-G motif; other site 224308001336 Tetratricopeptide repeat; Region: TPR_12; pfam13424 224308001337 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 224308001338 TPR motif; other site 224308001339 binding surface 224308001340 Tetratricopeptide repeat; Region: TPR_12; pfam13424 224308001341 Rap-phr extracellular signalling; Region: PhrC_PhrF; pfam11131 224308001342 similar to hypothetical protein; Evidence 6: Doubtful CDS 224308001343 aspartate kinase; Reviewed; Region: PRK09034 224308001344 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 224308001345 putative catalytic residues [active] 224308001346 putative nucleotide binding site [chemical binding]; other site 224308001347 putative aspartate binding site [chemical binding]; other site 224308001348 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 224308001349 allosteric regulatory residue; other site 224308001350 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 224308001351 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 224308001352 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 224308001353 ABC-ATPase subunit interface; other site 224308001354 dimer interface [polypeptide binding]; other site 224308001355 putative PBP binding regions; other site 224308001356 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 224308001357 ABC-ATPase subunit interface; other site 224308001358 dimer interface [polypeptide binding]; other site 224308001359 putative PBP binding regions; other site 224308001360 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 224308001361 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 224308001362 Walker A/P-loop; other site 224308001363 ATP binding site [chemical binding]; other site 224308001364 Q-loop/lid; other site 224308001365 ABC transporter signature motif; other site 224308001366 Walker B; other site 224308001367 D-loop; other site 224308001368 H-loop/switch region; other site 224308001369 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 224308001370 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 224308001371 putative ligand binding residues [chemical binding]; other site 224308001372 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 224308001373 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308001374 putative substrate translocation pore; other site 224308001375 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 224308001376 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308001377 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308001378 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 224308001379 dimer interface [polypeptide binding]; other site 224308001380 FMN binding site [chemical binding]; other site 224308001381 NADPH bind site [chemical binding]; other site 224308001382 Uncharacterized conserved protein [Function unknown]; Region: COG1359 224308001383 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 224308001384 dimerization interface [polypeptide binding]; other site 224308001385 putative DNA binding site [nucleotide binding]; other site 224308001386 putative Zn2+ binding site [ion binding]; other site 224308001387 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 224308001388 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308001389 DNA-binding site [nucleotide binding]; DNA binding site 224308001390 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 224308001391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308001392 homodimer interface [polypeptide binding]; other site 224308001393 catalytic residue [active] 224308001394 4-aminobutyrate aminotransferase; Reviewed; Region: PRK06918 224308001395 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 224308001396 inhibitor-cofactor binding pocket; inhibition site 224308001397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308001398 catalytic residue [active] 224308001399 succinic semialdehyde dehydrogenase; Region: PLN02278 224308001400 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 224308001401 tetramerization interface [polypeptide binding]; other site 224308001402 NAD(P) binding site [chemical binding]; other site 224308001403 catalytic residues [active] 224308001404 Sugar transport protein; Region: Sugar_transport; pfam06800 224308001405 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 224308001406 glucose-1-dehydrogenase; Provisional; Region: PRK08936 224308001407 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 224308001408 NAD binding site [chemical binding]; other site 224308001409 homodimer interface [polypeptide binding]; other site 224308001410 active site 224308001411 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 224308001412 Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]; Region: CopC; COG2372 224308001413 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 224308001414 YtkA-like; Region: YtkA; pfam13115 224308001415 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 224308001416 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 224308001417 NosL; Region: NosL; cl01769 224308001418 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 224308001419 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 224308001420 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 224308001421 active site 224308001422 P-loop; other site 224308001423 phosphorylation site [posttranslational modification] 224308001424 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 224308001425 active site 224308001426 phosphorylation site [posttranslational modification] 224308001427 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 224308001428 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 224308001429 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 224308001430 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 224308001431 tartrate dehydrogenase; Provisional; Region: PRK08194 224308001432 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 224308001433 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 224308001434 Catalytic site [active] 224308001435 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 224308001436 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 224308001437 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 224308001438 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 224308001439 active site 224308001440 motif I; other site 224308001441 motif II; other site 224308001442 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 224308001443 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 224308001444 putative active site [active] 224308001445 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 224308001446 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 224308001447 hypothetical protein; Provisional; Region: PRK05463 224308001448 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 224308001449 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 224308001450 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 224308001451 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 224308001452 Transcriptional regulator [Transcription]; Region: IclR; COG1414 224308001453 Bacterial transcriptional regulator; Region: IclR; pfam01614 224308001454 Lysophospholipase L1 and related esterases [Amino acid transport and metabolism]; Region: TesA; COG2755 224308001455 active site 224308001456 catalytic triad [active] 224308001457 oxyanion hole [active] 224308001458 Protein of unknown function (DUF3953); Region: DUF3953; pfam13129 224308001459 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 224308001460 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 224308001461 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 224308001462 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 224308001463 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 224308001464 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 224308001465 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 224308001466 active site 224308001467 catalytic tetrad [active] 224308001468 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 224308001469 HTH domain; Region: HTH_11; pfam08279 224308001470 PRD domain; Region: PRD; pfam00874 224308001471 PRD domain; Region: PRD; pfam00874 224308001472 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 224308001473 active site 224308001474 P-loop; other site 224308001475 phosphorylation site [posttranslational modification] 224308001476 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; cl00163 224308001477 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 224308001478 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 224308001479 acyl-activating enzyme (AAE) consensus motif; other site 224308001480 putative AMP binding site [chemical binding]; other site 224308001481 putative active site [active] 224308001482 putative CoA binding site [chemical binding]; other site 224308001483 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 224308001484 S-adenosylmethionine binding site [chemical binding]; other site 224308001485 short chain dehydrogenase; Provisional; Region: PRK06701 224308001486 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 224308001487 NAD binding site [chemical binding]; other site 224308001488 metal binding site [ion binding]; metal-binding site 224308001489 active site 224308001490 ABC-type sugar transport system, auxiliary component [General function prediction only]; Region: COG3822 224308001491 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 224308001492 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 224308001493 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 224308001494 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 224308001495 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 224308001496 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 224308001497 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 224308001498 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 224308001499 putative DNA binding site [nucleotide binding]; other site 224308001500 putative Zn2+ binding site [ion binding]; other site 224308001501 AsnC family; Region: AsnC_trans_reg; pfam01037 224308001502 DNA topoisomerase III; Provisional; Region: PRK07726 224308001503 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 224308001504 active site 224308001505 putative interdomain interaction site [polypeptide binding]; other site 224308001506 putative metal-binding site [ion binding]; other site 224308001507 putative nucleotide binding site [chemical binding]; other site 224308001508 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 224308001509 domain I; other site 224308001510 DNA binding groove [nucleotide binding] 224308001511 phosphate binding site [ion binding]; other site 224308001512 domain II; other site 224308001513 domain III; other site 224308001514 nucleotide binding site [chemical binding]; other site 224308001515 catalytic site [active] 224308001516 domain IV; other site 224308001517 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 224308001518 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 224308001519 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 224308001520 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 224308001521 metal binding site [ion binding]; metal-binding site 224308001522 active site 224308001523 I-site; other site 224308001524 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 224308001525 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 224308001526 NodB motif; other site 224308001527 putative active site [active] 224308001528 putative catalytic site [active] 224308001529 putative Zn binding site [ion binding]; other site 224308001530 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 224308001531 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 224308001532 DXD motif; other site 224308001533 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 224308001534 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 224308001535 Amino acid permease; Region: AA_permease_2; pfam13520 224308001536 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 224308001537 nudix motif; other site 224308001538 pyruvate oxidase; Provisional; Region: PRK08611 224308001539 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 224308001540 PYR/PP interface [polypeptide binding]; other site 224308001541 tetramer interface [polypeptide binding]; other site 224308001542 dimer interface [polypeptide binding]; other site 224308001543 TPP binding site [chemical binding]; other site 224308001544 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 224308001545 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 224308001546 TPP-binding site [chemical binding]; other site 224308001547 manganese transport protein MntH; Reviewed; Region: PRK00701 224308001548 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 224308001549 Predicted membrane protein [Function unknown]; Region: COG2261 224308001550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 224308001551 EcsC protein family; Region: EcsC; pfam12787 224308001552 General stress protein [General function prediction only]; Region: GsiB; COG3729 224308001553 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 224308001554 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 224308001555 dimanganese center [ion binding]; other site 224308001556 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 224308001557 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 224308001558 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 224308001559 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 224308001560 putative active site [active] 224308001561 heme pocket [chemical binding]; other site 224308001562 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 224308001563 ATP binding site [chemical binding]; other site 224308001564 Mg2+ binding site [ion binding]; other site 224308001565 G-X-G motif; other site 224308001566 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 224308001567 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 224308001568 active site 224308001569 phosphorylation site [posttranslational modification] 224308001570 intermolecular recognition site; other site 224308001571 dimerization interface [polypeptide binding]; other site 224308001572 HTH domain; Region: HTH_11; cl17392 224308001573 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 224308001574 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 224308001575 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 224308001576 Domain of unknown function DUF20; Region: UPF0118; pfam01594 224308001577 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 224308001578 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224308001579 Walker A/P-loop; other site 224308001580 ATP binding site [chemical binding]; other site 224308001581 Q-loop/lid; other site 224308001582 ABC transporter signature motif; other site 224308001583 Walker B; other site 224308001584 D-loop; other site 224308001585 H-loop/switch region; other site 224308001586 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 224308001587 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 224308001588 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 224308001589 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 224308001590 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 224308001591 Protein of unknown function (DUF3901); Region: DUF3901; pfam13040 224308001592 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 224308001593 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 224308001594 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 224308001595 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 224308001596 catalytic residues [active] 224308001597 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 224308001598 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 224308001599 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 224308001600 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 224308001601 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 224308001602 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 224308001603 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 224308001604 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 224308001605 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 224308001606 ATP binding site [chemical binding]; other site 224308001607 Mg++ binding site [ion binding]; other site 224308001608 motif III; other site 224308001609 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 224308001610 nucleotide binding region [chemical binding]; other site 224308001611 ATP-binding site [chemical binding]; other site 224308001612 Uncharacterized conserved protein [Function unknown]; Region: COG3402 224308001613 Predicted membrane protein [Function unknown]; Region: COG3428 224308001614 Bacterial PH domain; Region: DUF304; pfam03703 224308001615 Bacterial PH domain; Region: DUF304; pfam03703 224308001616 Bacterial PH domain; Region: DUF304; pfam03703 224308001617 Rhomboid family; Region: Rhomboid; pfam01694 224308001618 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 224308001619 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 224308001620 alanine racemase; Region: alr; TIGR00492 224308001621 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 224308001622 active site 224308001623 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 224308001624 dimer interface [polypeptide binding]; other site 224308001625 substrate binding site [chemical binding]; other site 224308001626 catalytic residues [active] 224308001627 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 224308001628 ribbon-helix-helix domain containing protein; Region: PHA00617 224308001629 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 224308001630 Rsbr N terminal; Region: Rsbr_N; pfam08678 224308001631 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 224308001632 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 224308001633 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 224308001634 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 224308001635 ATP binding site [chemical binding]; other site 224308001636 Mg2+ binding site [ion binding]; other site 224308001637 G-X-G motif; other site 224308001638 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 224308001639 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 224308001640 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 224308001641 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 224308001642 anti sigma factor interaction site; other site 224308001643 regulatory phosphorylation site [posttranslational modification]; other site 224308001644 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 224308001645 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 224308001646 ATP binding site [chemical binding]; other site 224308001647 Mg2+ binding site [ion binding]; other site 224308001648 G-X-G motif; other site 224308001649 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 224308001650 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308001651 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 224308001652 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 224308001653 DNA binding residues [nucleotide binding] 224308001654 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 224308001655 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 224308001656 hypothetical protein; Provisional; Region: PRK02268 224308001657 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308001658 MarR family; Region: MarR; pfam01047 224308001659 MarR family; Region: MarR_2; cl17246 224308001660 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 224308001661 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 224308001662 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 224308001663 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 224308001664 RNA binding site [nucleotide binding]; other site 224308001665 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 224308001666 hypothetical protein; Provisional; Region: PRK04351 224308001667 integrase; Provisional; Region: int; PHA02601 224308001668 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 224308001669 Int/Topo IB signature motif; other site 224308001670 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 224308001671 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224308001672 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 224308001673 non-specific DNA binding site [nucleotide binding]; other site 224308001674 salt bridge; other site 224308001675 sequence-specific DNA binding site [nucleotide binding]; other site 224308001676 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 224308001677 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 224308001678 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 224308001679 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 224308001680 Replication initiation factor; Region: Rep_trans; pfam02486 224308001681 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 224308001682 TcpE family; Region: TcpE; pfam12648 224308001683 AAA-like domain; Region: AAA_10; pfam12846 224308001684 Domain of unknown function (DUF1874); Region: DUF1874; pfam08960 224308001685 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 224308001686 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 224308001687 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 224308001688 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224308001689 catalytic residue [active] 224308001690 NlpC/P60 family; Region: NLPC_P60; pfam00877 224308001691 Toll - interleukin 1 - resistance; Region: TIR; smart00255 224308001692 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 224308001693 binding surface 224308001694 TPR motif; other site 224308001695 Tetratricopeptide repeat; Region: TPR_12; pfam13424 224308001696 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 224308001697 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 224308001698 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 224308001699 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 224308001700 AsnC family; Region: AsnC_trans_reg; pfam01037 224308001701 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 224308001702 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 224308001703 putative DNA binding site [nucleotide binding]; other site 224308001704 putative Zn2+ binding site [ion binding]; other site 224308001705 AsnC family; Region: AsnC_trans_reg; pfam01037 224308001706 Isochorismatase family; Region: Isochorismatase; pfam00857 224308001707 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 224308001708 catalytic triad [active] 224308001709 conserved cis-peptide bond; other site 224308001710 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 224308001711 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 224308001712 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 224308001713 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308001714 putative substrate translocation pore; other site 224308001715 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 224308001716 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 224308001717 conserved cys residue [active] 224308001718 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 224308001719 DNA-binding site [nucleotide binding]; DNA binding site 224308001720 RNA-binding motif; other site 224308001721 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 224308001722 EamA-like transporter family; Region: EamA; pfam00892 224308001723 Cupin domain; Region: Cupin_2; pfam07883 224308001724 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 224308001725 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308001726 EamA-like transporter family; Region: EamA; pfam00892 224308001727 EamA-like transporter family; Region: EamA; pfam00892 224308001728 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 224308001729 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308001730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 224308001731 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 224308001732 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308001733 DNA-binding site [nucleotide binding]; DNA binding site 224308001734 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 224308001735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308001736 homodimer interface [polypeptide binding]; other site 224308001737 catalytic residue [active] 224308001738 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 224308001739 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308001740 putative substrate translocation pore; other site 224308001741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 224308001742 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 224308001743 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 224308001744 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224308001745 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 224308001746 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308001747 DNA-binding site [nucleotide binding]; DNA binding site 224308001748 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 224308001749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308001750 homodimer interface [polypeptide binding]; other site 224308001751 catalytic residue [active] 224308001752 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 224308001753 putative active site [active] 224308001754 putative catalytic site [active] 224308001755 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 224308001756 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 224308001757 Predicted transcriptional regulators [Transcription]; Region: COG1733 224308001758 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 224308001759 Uncharacterized conserved protein [Function unknown]; Region: COG1284 224308001760 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224308001761 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224308001762 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 224308001763 Predicted transcriptional regulators [Transcription]; Region: COG1733 224308001764 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 224308001765 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 224308001766 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 224308001767 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 224308001768 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 224308001769 putative substrate translocation pore; other site 224308001770 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308001771 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308001772 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 224308001773 dimerization interface [polypeptide binding]; other site 224308001774 putative DNA binding site [nucleotide binding]; other site 224308001775 putative Zn2+ binding site [ion binding]; other site 224308001776 arsenical pump membrane protein; Provisional; Region: PRK15445 224308001777 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 224308001778 transmembrane helices; other site 224308001779 Evidence 4: Homologs of previously reported genes of unknown function 224308001780 Evidence 4: Homologs of previously reported genes of unknown function 224308001781 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 224308001782 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 224308001783 EamA-like transporter family; Region: EamA; pfam00892 224308001784 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 224308001785 EamA-like transporter family; Region: EamA; pfam00892 224308001786 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 224308001787 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308001788 DNA-binding site [nucleotide binding]; DNA binding site 224308001789 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 224308001790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308001791 homodimer interface [polypeptide binding]; other site 224308001792 catalytic residue [active] 224308001793 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 224308001794 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 224308001795 putative DNA binding site [nucleotide binding]; other site 224308001796 putative Zn2+ binding site [ion binding]; other site 224308001797 Uncharacterized conserved protein [Function unknown]; Region: COG2128 224308001798 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 224308001799 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 224308001800 Histidine kinase; Region: HisKA_3; pfam07730 224308001801 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 224308001802 ATP binding site [chemical binding]; other site 224308001803 Mg2+ binding site [ion binding]; other site 224308001804 G-X-G motif; other site 224308001805 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 224308001806 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 224308001807 active site 224308001808 phosphorylation site [posttranslational modification] 224308001809 intermolecular recognition site; other site 224308001810 dimerization interface [polypeptide binding]; other site 224308001811 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 224308001812 DNA binding residues [nucleotide binding] 224308001813 dimerization interface [polypeptide binding]; other site 224308001814 MMPL family; Region: MMPL; pfam03176 224308001815 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 224308001816 MMPL family; Region: MMPL; pfam03176 224308001817 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 224308001818 Uncharacterized membrane protein, possible Na+ channel or pump [General function prediction only]; Region: COG1811 224308001819 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 224308001820 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 224308001821 DNA binding residues [nucleotide binding] 224308001822 drug binding residues [chemical binding]; other site 224308001823 dimer interface [polypeptide binding]; other site 224308001824 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 224308001825 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 224308001826 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 224308001827 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 224308001828 dimer interface [polypeptide binding]; other site 224308001829 FMN binding site [chemical binding]; other site 224308001830 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 224308001831 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308001832 Zn binding site [ion binding]; other site 224308001833 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 224308001834 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308001835 Zn binding site [ion binding]; other site 224308001836 Predicted membrane protein [Function unknown]; Region: COG2259 224308001837 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 224308001838 catalytic residues [active] 224308001839 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 224308001840 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 224308001841 Predicted membrane protein [Function unknown]; Region: COG2323 224308001842 Predicted membrane protein [Function unknown]; Region: COG2323 224308001843 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 224308001844 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 224308001845 putative dimer interface [polypeptide binding]; other site 224308001846 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 224308001847 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 224308001848 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308001849 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308001850 DoxX-like family; Region: DoxX_2; pfam13564 224308001851 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 224308001852 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308001853 Coenzyme A binding pocket [chemical binding]; other site 224308001854 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 224308001855 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224308001856 ABC transporter; Region: ABC_tran_2; pfam12848 224308001857 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224308001858 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 224308001859 DinB family; Region: DinB; pfam05163 224308001860 DinB superfamily; Region: DinB_2; pfam12867 224308001861 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308001862 MarR family; Region: MarR; pfam01047 224308001863 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 224308001864 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 224308001865 dimer interface [polypeptide binding]; other site 224308001866 FMN binding site [chemical binding]; other site 224308001867 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308001868 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 224308001869 putative DNA binding site [nucleotide binding]; other site 224308001870 putative Zn2+ binding site [ion binding]; other site 224308001871 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 224308001872 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 224308001873 putative substrate translocation pore; other site 224308001874 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 224308001875 Transcriptional regulators [Transcription]; Region: GntR; COG1802 224308001876 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308001877 DNA-binding site [nucleotide binding]; DNA binding site 224308001878 FCD domain; Region: FCD; pfam07729 224308001879 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 224308001880 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308001881 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308001882 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 224308001883 active site 224308001884 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 224308001885 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 224308001886 homodimer interface [polypeptide binding]; other site 224308001887 active site 224308001888 TDP-binding site; other site 224308001889 acceptor substrate-binding pocket; other site 224308001890 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 224308001891 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 224308001892 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 224308001893 dimer interface [polypeptide binding]; other site 224308001894 active site 224308001895 Uncharacterized conserved protein [Function unknown]; Region: COG5646 224308001896 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308001897 Coenzyme A binding pocket [chemical binding]; other site 224308001898 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 224308001899 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 224308001900 Zn2+ binding site [ion binding]; other site 224308001901 Mg2+ binding site [ion binding]; other site 224308001902 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 224308001903 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 224308001904 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 224308001905 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 224308001906 putative substrate translocation pore; other site 224308001907 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 224308001908 active site 224308001909 P-loop; other site 224308001910 phosphorylation site [posttranslational modification] 224308001911 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 224308001912 active site 224308001913 methionine cluster; other site 224308001914 phosphorylation site [posttranslational modification] 224308001915 metal binding site [ion binding]; metal-binding site 224308001916 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 224308001917 PTS system, lactose/cellobiose family IIC component; Region: lacE; TIGR00410 224308001918 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 224308001919 beta-galactosidase; Region: BGL; TIGR03356 224308001920 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 224308001921 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308001922 DNA-binding site [nucleotide binding]; DNA binding site 224308001923 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 224308001924 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 224308001925 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 224308001926 nucleotide binding site [chemical binding]; other site 224308001927 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 224308001928 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 224308001929 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 224308001930 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe: enzyme 224308001931 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe: enzyme 224308001932 thiamine-monophosphate kinase; Region: thiL; TIGR01379 224308001933 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 224308001934 ATP binding site [chemical binding]; other site 224308001935 dimerization interface [polypeptide binding]; other site 224308001936 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 224308001937 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 224308001938 Glycoprotease family; Region: Peptidase_M22; pfam00814 224308001939 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 224308001940 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308001941 Coenzyme A binding pocket [chemical binding]; other site 224308001942 UGMP family protein; Validated; Region: PRK09604 224308001943 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 224308001944 nucleotide binding site [chemical binding]; other site 224308001945 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 224308001946 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224308001947 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224308001948 ABC transporter; Region: ABC_tran_2; pfam12848 224308001949 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224308001950 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 224308001951 trimer interface [polypeptide binding]; other site 224308001952 dimer interface [polypeptide binding]; other site 224308001953 putative active site [active] 224308001954 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 224308001955 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 224308001956 CoA binding domain; Region: CoA_binding; pfam02629 224308001957 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 224308001958 Twin arginine targeting (Tat) protein translocase TatC; Region: tatC; TIGR00945 224308001959 Domain of unknown function (DUF4305); Region: DUF4305; pfam14146 224308001960 CAAX protease self-immunity; Region: Abi; pfam02517 224308001961 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 224308001962 oligomerisation interface [polypeptide binding]; other site 224308001963 mobile loop; other site 224308001964 roof hairpin; other site 224308001965 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 224308001966 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 224308001967 ring oligomerisation interface [polypeptide binding]; other site 224308001968 ATP/Mg binding site [chemical binding]; other site 224308001969 stacking interactions; other site 224308001970 hinge regions; other site 224308001971 Evidence 7: Gene remnant 224308001972 Evidence 7: Gene remnant 224308001973 Evidence 7: Gene remnant 224308001974 Evidence 7: Gene remnant; Product type e : enzyme 224308001975 Evidence 7: Gene remnant; Product type pe : enzyme 224308001976 Evidence 4: Homologs of previously reported genes of unknown function; Product type h: extrachromosomal origin 224308001977 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 224308001978 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 224308001979 cofactor binding site; other site 224308001980 DNA binding site [nucleotide binding] 224308001981 substrate interaction site [chemical binding]; other site 224308001982 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 224308001983 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 224308001984 cofactor binding site; other site 224308001985 DNA binding site [nucleotide binding] 224308001986 substrate interaction site [chemical binding]; other site 224308001987 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe: enzyme 224308001988 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe: enzyme 224308001989 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe: enzyme 224308001990 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe: enzyme 224308001991 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe: enzyme 224308001992 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe: enzyme 224308001993 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe: enzyme 224308001994 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 224308001995 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 224308001996 LlaJI restriction endonuclease; Region: RE_LlaJI; pfam09563 224308001997 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 224308001998 Walker A motif; other site 224308001999 ATP binding site [chemical binding]; other site 224308002000 Walker B motif; other site 224308002001 TPR repeat; Region: TPR_11; pfam13414 224308002002 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 224308002003 TPR motif; other site 224308002004 TPR repeat; Region: TPR_11; pfam13414 224308002005 binding surface 224308002006 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 224308002007 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 224308002008 inhibitor binding site; inhibition site 224308002009 catalytic Zn binding site [ion binding]; other site 224308002010 structural Zn binding site [ion binding]; other site 224308002011 NADP binding site [chemical binding]; other site 224308002012 tetramer interface [polypeptide binding]; other site 224308002013 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 224308002014 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 224308002015 putative substrate translocation pore; other site 224308002016 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 224308002017 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 224308002018 putative substrate binding site [chemical binding]; other site 224308002019 putative ATP binding site [chemical binding]; other site 224308002020 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 224308002021 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 224308002022 DNA-directed RNA polymerase subunit F; Provisional; Region: PRK14981 224308002023 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 224308002024 Repair protein; Region: Repair_PSII; pfam04536 224308002025 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 224308002026 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_5; cd03408 224308002027 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 224308002028 Double zinc ribbon; Region: DZR; pfam12773 224308002029 Ion channel; Region: Ion_trans_2; pfam07885 224308002030 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 224308002031 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 224308002032 putative substrate translocation pore; other site 224308002033 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 224308002034 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 224308002035 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 224308002036 putative NAD(P) binding site [chemical binding]; other site 224308002037 catalytic Zn binding site [ion binding]; other site 224308002038 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 224308002039 Cold-inducible protein YdjO; Region: YdjO; pfam14169 224308002040 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 224308002041 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 224308002042 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 224308002043 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 224308002044 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 224308002045 Multicopper oxidase; Region: Cu-oxidase; pfam00394 224308002046 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 224308002047 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 224308002048 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 224308002049 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 224308002050 MoxR-like ATPases [General function prediction only]; Region: COG0714 224308002051 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 224308002052 Walker A motif; other site 224308002053 ATP binding site [chemical binding]; other site 224308002054 Walker B motif; other site 224308002055 arginine finger; other site 224308002056 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 224308002057 Protein of unknown function DUF58; Region: DUF58; pfam01882 224308002058 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 224308002059 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 224308002060 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 224308002061 GMP synthase; Reviewed; Region: guaA; PRK00074 224308002062 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 224308002063 AMP/PPi binding site [chemical binding]; other site 224308002064 candidate oxyanion hole; other site 224308002065 catalytic triad [active] 224308002066 potential glutamine specificity residues [chemical binding]; other site 224308002067 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 224308002068 ATP Binding subdomain [chemical binding]; other site 224308002069 Ligand Binding sites [chemical binding]; other site 224308002070 Dimerization subdomain; other site 224308002071 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 224308002072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4843 224308002073 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 224308002074 NETI protein; Region: NETI; pfam14044 224308002075 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 224308002076 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 224308002077 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 224308002078 NAD binding site [chemical binding]; other site 224308002079 ATP-grasp domain; Region: ATP-grasp; pfam02222 224308002080 adenylosuccinate lyase; Provisional; Region: PRK07492 224308002081 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 224308002082 tetramer interface [polypeptide binding]; other site 224308002083 active site 224308002084 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 224308002085 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 224308002086 ATP binding site [chemical binding]; other site 224308002087 active site 224308002088 substrate binding site [chemical binding]; other site 224308002089 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 224308002090 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 224308002091 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 224308002092 putative active site [active] 224308002093 catalytic triad [active] 224308002094 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 224308002095 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 224308002096 dimerization interface [polypeptide binding]; other site 224308002097 ATP binding site [chemical binding]; other site 224308002098 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 224308002099 dimerization interface [polypeptide binding]; other site 224308002100 ATP binding site [chemical binding]; other site 224308002101 amidophosphoribosyltransferase; Provisional; Region: PRK07631 224308002102 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 224308002103 active site 224308002104 tetramer interface [polypeptide binding]; other site 224308002105 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224308002106 active site 224308002107 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 224308002108 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 224308002109 dimerization interface [polypeptide binding]; other site 224308002110 putative ATP binding site [chemical binding]; other site 224308002111 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 224308002112 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 224308002113 active site 224308002114 substrate binding site [chemical binding]; other site 224308002115 cosubstrate binding site; other site 224308002116 catalytic site [active] 224308002117 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 224308002118 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 224308002119 purine monophosphate binding site [chemical binding]; other site 224308002120 dimer interface [polypeptide binding]; other site 224308002121 putative catalytic residues [active] 224308002122 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 224308002123 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 224308002124 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 224308002125 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 224308002126 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 224308002127 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 224308002128 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 224308002129 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 224308002130 putative DNA binding site [nucleotide binding]; other site 224308002131 putative Zn2+ binding site [ion binding]; other site 224308002132 AsnC family; Region: AsnC_trans_reg; pfam01037 224308002133 putative transporter; Provisional; Region: PRK11021 224308002134 Spore germination protein; Region: Spore_permease; cl17796 224308002135 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 224308002136 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 224308002137 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 224308002138 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 224308002139 active site 224308002140 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 224308002141 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 224308002142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4496 224308002143 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 224308002144 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 224308002145 active site 224308002146 FMN binding site [chemical binding]; other site 224308002147 substrate binding site [chemical binding]; other site 224308002148 3Fe-4S cluster binding site [ion binding]; other site 224308002149 PcrB family; Region: PcrB; pfam01884 224308002150 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 224308002151 substrate binding site [chemical binding]; other site 224308002152 putative active site [active] 224308002153 dimer interface [polypeptide binding]; other site 224308002154 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 224308002155 Part of AAA domain; Region: AAA_19; pfam13245 224308002156 Family description; Region: UvrD_C_2; pfam13538 224308002157 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 224308002158 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 224308002159 nucleotide binding pocket [chemical binding]; other site 224308002160 K-X-D-G motif; other site 224308002161 catalytic site [active] 224308002162 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 224308002163 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 224308002164 Helix-hairpin-helix motif; Region: HHH; pfam00633 224308002165 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 224308002166 Dimer interface [polypeptide binding]; other site 224308002167 Protein involved in sex pheromone biosynthesis [General function prediction only]; Region: CamS; COG4851 224308002168 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 224308002169 putative dimer interface [polypeptide binding]; other site 224308002170 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 224308002171 putative dimer interface [polypeptide binding]; other site 224308002172 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 224308002173 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 224308002174 active site 224308002175 ATP binding site [chemical binding]; other site 224308002176 substrate binding site [chemical binding]; other site 224308002177 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 224308002178 MgtC family; Region: MgtC; pfam02308 224308002179 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 224308002180 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 224308002181 Na binding site [ion binding]; other site 224308002182 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 224308002183 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 224308002184 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 224308002185 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 224308002186 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 224308002187 GatB domain; Region: GatB_Yqey; pfam02637 224308002188 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308002189 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308002190 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 224308002191 Protein export membrane protein; Region: SecD_SecF; cl14618 224308002192 Protein export membrane protein; Region: SecD_SecF; cl14618 224308002193 putative lipid kinase; Reviewed; Region: PRK13337 224308002194 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 224308002195 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 224308002196 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 224308002197 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 224308002198 S-adenosylmethionine binding site [chemical binding]; other site 224308002199 Recombinase; Region: Recombinase; pfam07508 224308002200 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 224308002201 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 224308002202 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 224308002203 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 224308002204 DNA-binding interface [nucleotide binding]; DNA binding site 224308002205 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 224308002206 Methyltransferase domain; Region: Methyltransf_26; pfam13659 224308002207 DEAD-like helicases superfamily; Region: DEXDc; smart00487 224308002208 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 224308002209 ATP binding site [chemical binding]; other site 224308002210 putative Mg++ binding site [ion binding]; other site 224308002211 T5orf172 domain; Region: T5orf172; pfam10544 224308002212 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 224308002213 Protein of unknown function, DUF600; Region: DUF600; cl04640 224308002214 Uncharacterized conserved protein [Function unknown]; Region: COG5444 224308002215 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 224308002216 Tetratricopeptide repeat; Region: TPR_12; pfam13424 224308002217 hypothetical protein; Provisional; Region: PRK12378 224308002218 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308002219 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308002220 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 224308002221 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 224308002222 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 224308002223 NADP binding site [chemical binding]; other site 224308002224 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 224308002225 CotJB protein; Region: CotJB; pfam12652 224308002226 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 224308002227 dimanganese center [ion binding]; other site 224308002228 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308002229 Coenzyme A binding pocket [chemical binding]; other site 224308002230 YesK-like protein; Region: YesK; pfam14150 224308002231 Predicted integral membrane protein [Function unknown]; Region: COG5578 224308002232 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 224308002233 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 224308002234 dimerization interface [polypeptide binding]; other site 224308002235 Histidine kinase; Region: His_kinase; pfam06580 224308002236 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 224308002237 ATP binding site [chemical binding]; other site 224308002238 Mg2+ binding site [ion binding]; other site 224308002239 G-X-G motif; other site 224308002240 Response regulator receiver domain; Region: Response_reg; pfam00072 224308002241 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 224308002242 active site 224308002243 phosphorylation site [posttranslational modification] 224308002244 intermolecular recognition site; other site 224308002245 dimerization interface [polypeptide binding]; other site 224308002246 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 224308002247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308002248 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 224308002249 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 224308002250 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 224308002251 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 224308002252 dimer interface [polypeptide binding]; other site 224308002253 conserved gate region; other site 224308002254 putative PBP binding loops; other site 224308002255 ABC-ATPase subunit interface; other site 224308002256 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224308002257 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 224308002258 dimer interface [polypeptide binding]; other site 224308002259 conserved gate region; other site 224308002260 putative PBP binding loops; other site 224308002261 ABC-ATPase subunit interface; other site 224308002262 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 224308002263 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 224308002264 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308002265 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 224308002266 active site 224308002267 catalytic triad [active] 224308002268 Domain of unknown function (DUF1961); Region: DUF1961; pfam09224 224308002269 Predicted integral membrane protein [Function unknown]; Region: COG5578 224308002270 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 224308002271 metal binding site [ion binding]; metal-binding site 224308002272 active site 224308002273 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 224308002274 metal binding site [ion binding]; metal-binding site 224308002275 active site 224308002276 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 224308002277 active site 224308002278 catalytic triad [active] 224308002279 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 224308002280 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 224308002281 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 224308002282 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 224308002283 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 224308002284 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 224308002285 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 224308002286 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 224308002287 dimer interface [polypeptide binding]; other site 224308002288 putative PBP binding loops; other site 224308002289 ABC-ATPase subunit interface; other site 224308002290 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224308002291 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 224308002292 dimer interface [polypeptide binding]; other site 224308002293 conserved gate region; other site 224308002294 putative PBP binding loops; other site 224308002295 ABC-ATPase subunit interface; other site 224308002296 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 224308002297 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 224308002298 NAD binding site [chemical binding]; other site 224308002299 sugar binding site [chemical binding]; other site 224308002300 divalent metal binding site [ion binding]; other site 224308002301 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 224308002302 dimer interface [polypeptide binding]; other site 224308002303 Predicted membrane protein [Function unknown]; Region: COG2323 224308002304 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 224308002305 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308002306 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 224308002307 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId: 11157946; Product type pr : regulator 224308002308 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId: 11157946; Product type pr : regulator 224308002309 Uncharacterized small protein [Function unknown]; Region: COG5583 224308002310 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 224308002311 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 224308002312 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224308002313 EamA-like transporter family; Region: EamA; pfam00892 224308002314 EamA-like transporter family; Region: EamA; pfam00892 224308002315 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308002316 MarR family; Region: MarR; pfam01047 224308002317 hypothetical protein; Provisional; Region: PRK06847 224308002318 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 224308002319 Protein of unknown function (DUF3900); Region: DUF3900; pfam13039 224308002320 Domain of unknown function (DUF3898); Region: DUF3898; pfam13037 224308002321 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 224308002322 Cytochrome P450; Region: p450; pfam00067 224308002323 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 224308002324 Flavodoxin; Region: Flavodoxin_1; pfam00258 224308002325 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 224308002326 FAD binding pocket [chemical binding]; other site 224308002327 FAD binding motif [chemical binding]; other site 224308002328 catalytic residues [active] 224308002329 NAD binding pocket [chemical binding]; other site 224308002330 phosphate binding motif [ion binding]; other site 224308002331 beta-alpha-beta structure motif; other site 224308002332 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 224308002333 Sulfatase; Region: Sulfatase; pfam00884 224308002334 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 224308002335 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 224308002336 substrate binding site; other site 224308002337 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 224308002338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224308002339 NAD(P) binding site [chemical binding]; other site 224308002340 active site 224308002341 Nucleotide-diphospho-sugar transferase; Region: Nucleotid_trans; pfam03407 224308002342 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 224308002343 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 224308002344 active site 224308002345 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 224308002346 Nucleotide-diphospho-sugar transferase; Region: Nucleotid_trans; pfam03407 224308002347 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308002348 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 224308002349 putative substrate translocation pore; other site 224308002350 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 224308002351 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 224308002352 active site 224308002353 motif I; other site 224308002354 motif II; other site 224308002355 amino acid transporter; Region: 2A0306; TIGR00909 224308002356 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 224308002357 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 224308002358 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 224308002359 NAD(P) binding site [chemical binding]; other site 224308002360 catalytic residues [active] 224308002361 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 224308002362 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 224308002363 dimer interface [polypeptide binding]; other site 224308002364 putative CheW interface [polypeptide binding]; other site 224308002365 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 224308002366 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224308002367 Walker A/P-loop; other site 224308002368 ATP binding site [chemical binding]; other site 224308002369 Q-loop/lid; other site 224308002370 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224308002371 ABC transporter signature motif; other site 224308002372 Walker B; other site 224308002373 D-loop; other site 224308002374 ABC transporter; Region: ABC_tran_2; pfam12848 224308002375 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224308002376 Uncharacterized protein from bacillus cereus group; Region: YfmQ; pfam10787 224308002377 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 224308002378 Helix-Turn-Helix DNA binding domain of the YfmP transcription regulator; Region: HTH_YfmP; cd04774 224308002379 DNA binding residues [nucleotide binding] 224308002380 putative dimer interface [polypeptide binding]; other site 224308002381 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 224308002382 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 224308002383 putative substrate translocation pore; other site 224308002384 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 224308002385 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224308002386 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224308002387 ABC transporter; Region: ABC_tran_2; pfam12848 224308002388 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224308002389 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 224308002390 DEAD-like helicases superfamily; Region: DEXDc; smart00487 224308002391 ATP binding site [chemical binding]; other site 224308002392 putative Mg++ binding site [ion binding]; other site 224308002393 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 224308002394 nucleotide binding region [chemical binding]; other site 224308002395 ATP-binding site [chemical binding]; other site 224308002396 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 224308002397 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 224308002398 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 224308002399 Prostaglandin dehydrogenases; Region: PGDH; cd05288 224308002400 NAD(P) binding site [chemical binding]; other site 224308002401 substrate binding site [chemical binding]; other site 224308002402 dimer interface [polypeptide binding]; other site 224308002403 H+ Antiporter protein; Region: 2A0121; TIGR00900 224308002404 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 224308002405 Uncharacterized conserved protein [Function unknown]; Region: COG1262 224308002406 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 224308002407 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 224308002408 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 224308002409 Walker A/P-loop; other site 224308002410 ATP binding site [chemical binding]; other site 224308002411 Q-loop/lid; other site 224308002412 ABC transporter signature motif; other site 224308002413 Walker B; other site 224308002414 D-loop; other site 224308002415 H-loop/switch region; other site 224308002416 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 224308002417 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 224308002418 ABC-ATPase subunit interface; other site 224308002419 dimer interface [polypeptide binding]; other site 224308002420 putative PBP binding regions; other site 224308002421 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 224308002422 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 224308002423 ABC-ATPase subunit interface; other site 224308002424 dimer interface [polypeptide binding]; other site 224308002425 putative PBP binding regions; other site 224308002426 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 224308002427 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 224308002428 siderophore binding site; other site 224308002429 Protein of unknown function (DUF3212); Region: DUF3212; pfam11486 224308002430 Heat induced stress protein YflT; Region: YflT; pfam11181 224308002431 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 224308002432 Amb_all domain; Region: Amb_all; smart00656 224308002433 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 224308002434 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 224308002435 transmembrane helices; other site 224308002436 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 224308002437 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 224308002438 ATP binding site [chemical binding]; other site 224308002439 Mg2+ binding site [ion binding]; other site 224308002440 G-X-G motif; other site 224308002441 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 224308002442 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 224308002443 active site 224308002444 phosphorylation site [posttranslational modification] 224308002445 intermolecular recognition site; other site 224308002446 dimerization interface [polypeptide binding]; other site 224308002447 Transcriptional regulator; Region: CitT; pfam12431 224308002448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 224308002449 citrate transporter, CitMHS family; Region: citMHS; TIGR00784 224308002450 Citrate transporter; Region: CitMHS; pfam03600 224308002451 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 224308002452 Nitric oxide synthase (NOS) prokaryotic oxygenase domain. 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...; Region: NOS_oxygenase_prok; cd00794 224308002453 active site 224308002454 dimer interface [polypeptide binding]; other site 224308002455 acylphosphatase; Provisional; Region: PRK14420 224308002456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 224308002457 MOSC domain; Region: MOSC; pfam03473 224308002458 3-alpha domain; Region: 3-alpha; pfam03475 224308002459 Protein of unknown function (DUF2639); Region: DUF2639; pfam11121 224308002460 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 224308002461 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 224308002462 active site 224308002463 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 224308002464 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 224308002465 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 224308002466 active site turn [active] 224308002467 phosphorylation site [posttranslational modification] 224308002468 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 224308002469 Sulfatase; Region: Sulfatase; pfam00884 224308002470 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 224308002471 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 224308002472 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 224308002473 spore germination protein (amino acid permease); Region: 2A0309; TIGR00912 224308002474 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 224308002475 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 224308002476 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 224308002477 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 224308002478 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 224308002479 active site turn [active] 224308002480 phosphorylation site [posttranslational modification] 224308002481 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 224308002482 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 224308002483 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 224308002484 Ca binding site [ion binding]; other site 224308002485 active site 224308002486 catalytic site [active] 224308002487 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 224308002488 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308002489 DNA-binding site [nucleotide binding]; DNA binding site 224308002490 UTRA domain; Region: UTRA; pfam07702 224308002491 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 224308002492 dimer interface [polypeptide binding]; other site 224308002493 FMN binding site [chemical binding]; other site 224308002494 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK09419 224308002495 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 224308002496 active site 224308002497 metal binding site [ion binding]; metal-binding site 224308002498 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 224308002499 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 224308002500 active site 224308002501 metal binding site [ion binding]; metal-binding site 224308002502 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 224308002503 intracellular protease, PfpI family; Region: PfpI; TIGR01382 224308002504 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 224308002505 proposed catalytic triad [active] 224308002506 conserved cys residue [active] 224308002507 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 224308002508 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308002509 putative substrate translocation pore; other site 224308002510 Protein of unknown function (DUF1128); Region: DUF1128; pfam06569 224308002511 Low molecular weight phosphatase family; Region: LMWPc; cd00115 224308002512 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 224308002513 active site 224308002514 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 224308002515 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 224308002516 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308002517 putative substrate translocation pore; other site 224308002518 calcium/proton exchanger (cax); Region: cax; TIGR00378 224308002519 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 224308002520 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 224308002521 YfkD-like protein; Region: YfkD; pfam14167 224308002522 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 224308002523 Mechanosensitive ion channel; Region: MS_channel; pfam00924 224308002524 Radical SAM superfamily; Region: Radical_SAM; pfam04055 224308002525 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 224308002526 FeS/SAM binding site; other site 224308002527 YfkB-like domain; Region: YfkB; pfam08756 224308002528 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 224308002529 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 224308002530 NodB motif; other site 224308002531 active site 224308002532 catalytic site [active] 224308002533 Cd binding site [ion binding]; other site 224308002534 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 224308002535 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 224308002536 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 224308002537 Uncharacterized bacterial subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u2; cd12831 224308002538 oligomer interface [polypeptide binding]; other site 224308002539 metal binding site [ion binding]; metal-binding site 224308002540 metal binding site [ion binding]; metal-binding site 224308002541 putative Cl binding site [ion binding]; other site 224308002542 aspartate ring; other site 224308002543 basic sphincter; other site 224308002544 hydrophobic gate; other site 224308002545 periplasmic entrance; other site 224308002546 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 224308002547 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 224308002548 minor groove reading motif; other site 224308002549 helix-hairpin-helix signature motif; other site 224308002550 substrate binding pocket [chemical binding]; other site 224308002551 active site 224308002552 TRAM domain; Region: TRAM; pfam01938 224308002553 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 224308002554 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 224308002555 S-adenosylmethionine binding site [chemical binding]; other site 224308002556 YfzA-like protein; Region: YfzA; pfam14118 224308002557 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 224308002558 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 224308002559 FMN binding site [chemical binding]; other site 224308002560 active site 224308002561 catalytic residues [active] 224308002562 substrate binding site [chemical binding]; other site 224308002563 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 224308002564 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 224308002565 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 224308002566 tetramer interface [polypeptide binding]; other site 224308002567 TPP-binding site [chemical binding]; other site 224308002568 heterodimer interface [polypeptide binding]; other site 224308002569 phosphorylation loop region [posttranslational modification] 224308002570 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 224308002571 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 224308002572 alpha subunit interface [polypeptide binding]; other site 224308002573 TPP binding site [chemical binding]; other site 224308002574 heterodimer interface [polypeptide binding]; other site 224308002575 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 224308002576 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 224308002577 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 224308002578 E3 interaction surface; other site 224308002579 lipoyl attachment site [posttranslational modification]; other site 224308002580 e3 binding domain; Region: E3_binding; pfam02817 224308002581 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 224308002582 dihydrolipoamide dehydrogenase; Validated; Region: acoL; PRK06912 224308002583 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224308002584 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 224308002585 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 224308002586 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 224308002587 Walker A motif; other site 224308002588 ATP binding site [chemical binding]; other site 224308002589 Walker B motif; other site 224308002590 arginine finger; other site 224308002591 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 224308002592 acid-soluble spore protein H; Provisional; Region: sspH; PRK03174 224308002593 hypothetical protein; Provisional; Region: PRK02237 224308002594 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 224308002595 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 224308002596 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 224308002597 NAD binding site [chemical binding]; other site 224308002598 sugar binding site [chemical binding]; other site 224308002599 divalent metal binding site [ion binding]; other site 224308002600 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 224308002601 dimer interface [polypeptide binding]; other site 224308002602 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 224308002603 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 224308002604 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 224308002605 putative active site [active] 224308002606 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 224308002607 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 224308002608 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 224308002609 active site turn [active] 224308002610 phosphorylation site [posttranslational modification] 224308002611 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 224308002612 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224308002613 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224308002614 Walker A/P-loop; other site 224308002615 ATP binding site [chemical binding]; other site 224308002616 Q-loop/lid; other site 224308002617 ABC transporter signature motif; other site 224308002618 Walker B; other site 224308002619 D-loop; other site 224308002620 H-loop/switch region; other site 224308002621 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 224308002622 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224308002623 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 224308002624 Walker A/P-loop; other site 224308002625 ATP binding site [chemical binding]; other site 224308002626 Q-loop/lid; other site 224308002627 ABC transporter signature motif; other site 224308002628 Walker B; other site 224308002629 D-loop; other site 224308002630 H-loop/switch region; other site 224308002631 Predicted membrane protein [Function unknown]; Region: COG2259 224308002632 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 224308002633 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 224308002634 putative metal binding site [ion binding]; other site 224308002635 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 224308002636 active site 224308002637 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 224308002638 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 224308002639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308002640 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308002641 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 224308002642 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 224308002643 putative substrate translocation pore; other site 224308002644 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 224308002645 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 224308002646 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224308002647 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224308002648 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224308002649 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 224308002650 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 224308002651 Histidine kinase; Region: HisKA_3; pfam07730 224308002652 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 224308002653 ATP binding site [chemical binding]; other site 224308002654 Mg2+ binding site [ion binding]; other site 224308002655 G-X-G motif; other site 224308002656 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 224308002657 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 224308002658 active site 224308002659 phosphorylation site [posttranslational modification] 224308002660 intermolecular recognition site; other site 224308002661 dimerization interface [polypeptide binding]; other site 224308002662 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 224308002663 DNA binding residues [nucleotide binding] 224308002664 dimerization interface [polypeptide binding]; other site 224308002665 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 224308002666 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224308002667 Walker A/P-loop; other site 224308002668 ATP binding site [chemical binding]; other site 224308002669 Q-loop/lid; other site 224308002670 ABC transporter signature motif; other site 224308002671 Walker B; other site 224308002672 D-loop; other site 224308002673 H-loop/switch region; other site 224308002674 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 224308002675 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 224308002676 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 224308002677 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 224308002678 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 224308002679 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 224308002680 Predicted transcriptional regulators [Transcription]; Region: COG1695 224308002681 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 224308002682 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 224308002683 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 224308002684 Lipase (class 2); Region: Lipase_2; pfam01674 224308002685 Protein involved in polysaccharide intercellular adhesin (PIA) synthesis/biofilm formation [Carbohydrate transport and metabolism]; Region: COG3936 224308002686 Acyltransferase family; Region: Acyl_transf_3; pfam01757 224308002687 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308002688 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308002689 H+ Antiporter protein; Region: 2A0121; TIGR00900 224308002690 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 224308002691 putative substrate translocation pore; other site 224308002692 metal-dependent hydrolase; Provisional; Region: PRK13291 224308002693 DinB superfamily; Region: DinB_2; pfam12867 224308002694 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 224308002695 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308002696 putative substrate translocation pore; other site 224308002697 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308002698 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 224308002699 putative Zn2+ binding site [ion binding]; other site 224308002700 putative DNA binding site [nucleotide binding]; other site 224308002701 Predicted integral membrane protein [Function unknown]; Region: COG0392 224308002702 Uncharacterized conserved protein [Function unknown]; Region: COG2898 224308002703 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 224308002704 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 224308002705 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 224308002706 siderophore binding site; other site 224308002707 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 224308002708 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 224308002709 ABC-ATPase subunit interface; other site 224308002710 dimer interface [polypeptide binding]; other site 224308002711 putative PBP binding regions; other site 224308002712 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 224308002713 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 224308002714 ABC-ATPase subunit interface; other site 224308002715 dimer interface [polypeptide binding]; other site 224308002716 putative PBP binding regions; other site 224308002717 phenazine biosynthesis protein PhzF family; Region: PhzF_family; TIGR00654 224308002718 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 224308002719 putative FMN binding site [chemical binding]; other site 224308002720 YfhD-like protein; Region: YfhD; pfam14151 224308002721 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 224308002722 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 224308002723 putative NAD(P) binding site [chemical binding]; other site 224308002724 putative active site [active] 224308002725 recombination regulator RecX; Provisional; Region: recX; PRK14135 224308002726 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 224308002727 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 224308002728 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 224308002729 putative substrate translocation pore; other site 224308002730 Small acid-soluble spore protein K family; Region: SspK; pfam08176 224308002731 WVELL protein; Region: WVELL; pfam14043 224308002732 Bacterial SH3 domain; Region: SH3_3; pfam08239 224308002733 Bacterial SH3 domain; Region: SH3_3; cl17532 224308002734 Predicted integral membrane protein [Function unknown]; Region: COG5658 224308002735 SdpI/YhfL protein family; Region: SdpI; pfam13630 224308002736 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 224308002737 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 224308002738 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 224308002739 catalytic site [active] 224308002740 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 224308002741 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 224308002742 Ligand binding site; other site 224308002743 Putative Catalytic site; other site 224308002744 DXD motif; other site 224308002745 Predicted membrane protein [Function unknown]; Region: COG4485 224308002746 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 224308002747 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 224308002748 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 224308002749 minor groove reading motif; other site 224308002750 helix-hairpin-helix signature motif; other site 224308002751 substrate binding pocket [chemical binding]; other site 224308002752 active site 224308002753 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 224308002754 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 224308002755 DNA binding and oxoG recognition site [nucleotide binding] 224308002756 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 224308002757 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 224308002758 putative NAD(P) binding site [chemical binding]; other site 224308002759 active site 224308002760 YgaB-like protein; Region: YgaB; pfam14182 224308002761 hypothetical protein; Provisional; Region: PRK13662 224308002762 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 224308002763 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224308002764 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 224308002765 Walker A/P-loop; other site 224308002766 ATP binding site [chemical binding]; other site 224308002767 Q-loop/lid; other site 224308002768 ABC transporter signature motif; other site 224308002769 Walker B; other site 224308002770 D-loop; other site 224308002771 H-loop/switch region; other site 224308002772 Predicted membrane protein [Function unknown]; Region: COG4129 224308002773 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 224308002774 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 224308002775 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 224308002776 inhibitor-cofactor binding pocket; inhibition site 224308002777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308002778 catalytic residue [active] 224308002779 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 224308002780 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 224308002781 catalytic triad [active] 224308002782 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 224308002783 metal binding site 2 [ion binding]; metal-binding site 224308002784 putative DNA binding helix; other site 224308002785 metal binding site 1 [ion binding]; metal-binding site 224308002786 dimer interface [polypeptide binding]; other site 224308002787 structural Zn2+ binding site [ion binding]; other site 224308002788 Protein of unknown function (DUF2614); Region: DUF2614; pfam11023 224308002789 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 224308002790 SpoOM protein; Region: Spo0M; pfam07070 224308002791 Coat F domain; Region: Coat_F; pfam07875 224308002792 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 224308002793 active site pocket [active] 224308002794 oxyanion hole [active] 224308002795 catalytic triad [active] 224308002796 active site nucleophile [active] 224308002797 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 224308002798 ThiC-associated domain; Region: ThiC-associated; pfam13667 224308002799 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 224308002800 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 224308002801 FAD binding domain; Region: FAD_binding_4; pfam01565 224308002802 Berberine and berberine like; Region: BBE; pfam08031 224308002803 Protein of unknown function (DUF3901); Region: DUF3901; pfam13040 224308002804 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 224308002805 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 224308002806 tetramer interface [polypeptide binding]; other site 224308002807 heme binding pocket [chemical binding]; other site 224308002808 NADPH binding site [chemical binding]; other site 224308002809 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 224308002810 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 224308002811 Walker A/P-loop; other site 224308002812 ATP binding site [chemical binding]; other site 224308002813 Q-loop/lid; other site 224308002814 ABC transporter signature motif; other site 224308002815 Walker B; other site 224308002816 D-loop; other site 224308002817 H-loop/switch region; other site 224308002818 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 224308002819 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 224308002820 substrate binding pocket [chemical binding]; other site 224308002821 membrane-bound complex binding site; other site 224308002822 hinge residues; other site 224308002823 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 224308002824 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 224308002825 dimer interface [polypeptide binding]; other site 224308002826 conserved gate region; other site 224308002827 putative PBP binding loops; other site 224308002828 ABC-ATPase subunit interface; other site 224308002829 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 224308002830 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 224308002831 active site 224308002832 dimer interface [polypeptide binding]; other site 224308002833 non-prolyl cis peptide bond; other site 224308002834 insertion regions; other site 224308002835 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 224308002836 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224308002837 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 224308002838 non-specific DNA binding site [nucleotide binding]; other site 224308002839 salt bridge; other site 224308002840 sequence-specific DNA binding site [nucleotide binding]; other site 224308002841 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 224308002842 epoxyqueuosine reductase; Region: TIGR00276 224308002843 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 224308002844 Putative amidase domain; Region: Amidase_6; pfam12671 224308002845 tRNA (cytidine(34)-2'-O)-methyltransferase; Region: tRNA_yibK_trmL; TIGR00185 224308002846 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 224308002847 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 224308002848 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 224308002849 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 224308002850 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 224308002851 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 224308002852 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 224308002853 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308002854 MarR family; Region: MarR; pfam01047 224308002855 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 224308002856 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 224308002857 carboxyltransferase (CT) interaction site; other site 224308002858 biotinylation site [posttranslational modification]; other site 224308002859 HlyD family secretion protein; Region: HlyD_3; pfam13437 224308002860 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 224308002861 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 224308002862 putative substrate translocation pore; other site 224308002863 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 224308002864 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 224308002865 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 224308002866 Predicted transcriptional regulators [Transcription]; Region: COG1725 224308002867 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308002868 DNA-binding site [nucleotide binding]; DNA binding site 224308002869 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 224308002870 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 224308002871 Walker A/P-loop; other site 224308002872 ATP binding site [chemical binding]; other site 224308002873 Q-loop/lid; other site 224308002874 ABC transporter signature motif; other site 224308002875 Walker B; other site 224308002876 D-loop; other site 224308002877 H-loop/switch region; other site 224308002878 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 224308002879 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224308002880 Walker A/P-loop; other site 224308002881 ATP binding site [chemical binding]; other site 224308002882 Q-loop/lid; other site 224308002883 ABC transporter signature motif; other site 224308002884 Walker B; other site 224308002885 D-loop; other site 224308002886 H-loop/switch region; other site 224308002887 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 224308002888 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 224308002889 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 224308002890 DNA-binding site [nucleotide binding]; DNA binding site 224308002891 RNA-binding motif; other site 224308002892 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 224308002893 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 224308002894 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 224308002895 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 224308002896 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 224308002897 metal binding site [ion binding]; metal-binding site 224308002898 active site 224308002899 I-site; other site 224308002900 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 224308002901 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 224308002902 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 224308002903 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 224308002904 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 224308002905 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 224308002906 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 224308002907 generic binding surface II; other site 224308002908 generic binding surface I; other site 224308002909 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 224308002910 generic binding surface II; other site 224308002911 generic binding surface I; other site 224308002912 Staphylococcal nuclease homologues; Region: SNc; smart00318 224308002913 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 224308002914 Catalytic site; other site 224308002915 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 224308002916 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 224308002917 putative active site [active] 224308002918 putative metal binding site [ion binding]; other site 224308002919 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 224308002920 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 224308002921 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 224308002922 active site 224308002923 catalytic site [active] 224308002924 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 224308002925 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 224308002926 RNA binding surface [nucleotide binding]; other site 224308002927 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 224308002928 active site 224308002929 FOG: CBS domain [General function prediction only]; Region: COG0517 224308002930 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 224308002931 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 224308002932 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 224308002933 motif II; other site 224308002934 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308002935 Coenzyme A binding pocket [chemical binding]; other site 224308002936 Predicted amidohydrolase [General function prediction only]; Region: COG0388 224308002937 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 224308002938 putative active site [active] 224308002939 catalytic triad [active] 224308002940 putative dimer interface [polypeptide binding]; other site 224308002941 Evidence 5: No homology to any previously reported sequences 224308002942 aminotransferase; Validated; Region: PRK07678 224308002943 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 224308002944 inhibitor-cofactor binding pocket; inhibition site 224308002945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308002946 catalytic residue [active] 224308002947 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 224308002948 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; cd00333 224308002949 amphipathic channel; other site 224308002950 Asn-Pro-Ala signature motifs; other site 224308002951 glycerol kinase; Provisional; Region: glpK; PRK00047 224308002952 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 224308002953 N- and C-terminal domain interface [polypeptide binding]; other site 224308002954 active site 224308002955 MgATP binding site [chemical binding]; other site 224308002956 catalytic site [active] 224308002957 metal binding site [ion binding]; metal-binding site 224308002958 glycerol binding site [chemical binding]; other site 224308002959 homotetramer interface [polypeptide binding]; other site 224308002960 homodimer interface [polypeptide binding]; other site 224308002961 FBP binding site [chemical binding]; other site 224308002962 protein IIAGlc interface [polypeptide binding]; other site 224308002963 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 224308002964 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 224308002965 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 224308002966 active site 224308002967 substrate binding site [chemical binding]; other site 224308002968 metal binding site [ion binding]; metal-binding site 224308002969 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 224308002970 GAF domain; Region: GAF; pfam01590 224308002971 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 224308002972 Histidine kinase; Region: HisKA_3; pfam07730 224308002973 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 224308002974 ATP binding site [chemical binding]; other site 224308002975 Mg2+ binding site [ion binding]; other site 224308002976 G-X-G motif; other site 224308002977 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 224308002978 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 224308002979 active site 224308002980 phosphorylation site [posttranslational modification] 224308002981 intermolecular recognition site; other site 224308002982 dimerization interface [polypeptide binding]; other site 224308002983 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 224308002984 DNA binding residues [nucleotide binding] 224308002985 dimerization interface [polypeptide binding]; other site 224308002986 Predicted flavoprotein [General function prediction only]; Region: COG0431 224308002987 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 224308002988 YhdB-like protein; Region: YhdB; pfam14148 224308002989 Protein of unknown function (DUF3889); Region: DUF3889; pfam13028 224308002990 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308002991 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308002992 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308002993 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308002994 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308002995 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 224308002996 NlpC/P60 family; Region: NLPC_P60; pfam00877 224308002997 Transcriptional regulator; Region: Rrf2; cl17282 224308002998 Rrf2 family protein; Region: rrf2_super; TIGR00738 224308002999 Conserved TM helix; Region: TM_helix; pfam05552 224308003000 Conserved TM helix; Region: TM_helix; pfam05552 224308003001 Conserved TM helix; Region: TM_helix; pfam05552 224308003002 Conserved TM helix; Region: TM_helix; pfam05552 224308003003 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 224308003004 SpoVR like protein; Region: SpoVR; pfam04293 224308003005 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 224308003006 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 224308003007 dimer interface [polypeptide binding]; other site 224308003008 active site 224308003009 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308003010 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308003011 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308003012 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 224308003013 NlpC/P60 family; Region: NLPC_P60; pfam00877 224308003014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308003015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308003016 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 224308003017 dimerization interface [polypeptide binding]; other site 224308003018 Bacillus subtilis (Bs) citrate synthase CS-I_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: BsCS-I_like; cd06109 224308003019 dimer interface [polypeptide binding]; other site 224308003020 Citrate synthase; Region: Citrate_synt; pfam00285 224308003021 active site 224308003022 citrylCoA binding site [chemical binding]; other site 224308003023 oxalacetate/citrate binding site [chemical binding]; other site 224308003024 coenzyme A binding site [chemical binding]; other site 224308003025 catalytic triad [active] 224308003026 short chain dehydrogenase; Provisional; Region: PRK06701 224308003027 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 224308003028 NAD binding site [chemical binding]; other site 224308003029 metal binding site [ion binding]; metal-binding site 224308003030 active site 224308003031 amino acid transporter; Region: 2A0306; TIGR00909 224308003032 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 224308003033 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 224308003034 Na2 binding site [ion binding]; other site 224308003035 putative substrate binding site 1 [chemical binding]; other site 224308003036 Na binding site 1 [ion binding]; other site 224308003037 putative substrate binding site 2 [chemical binding]; other site 224308003038 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 224308003039 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308003040 DNA-binding site [nucleotide binding]; DNA binding site 224308003041 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 224308003042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308003043 homodimer interface [polypeptide binding]; other site 224308003044 catalytic residue [active] 224308003045 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 224308003046 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308003047 Coenzyme A binding pocket [chemical binding]; other site 224308003048 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 224308003049 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 224308003050 RNA polymerase sigma factor SigM; Provisional; Region: PRK09644 224308003051 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308003052 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 224308003053 DNA binding residues [nucleotide binding] 224308003054 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 224308003055 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 224308003056 active site 224308003057 catalytic tetrad [active] 224308003058 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 224308003059 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 224308003060 putative acyl-acceptor binding pocket; other site 224308003061 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 224308003062 Domain of unknown function DUF21; Region: DUF21; pfam01595 224308003063 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 224308003064 Transporter associated domain; Region: CorC_HlyC; smart01091 224308003065 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg4; cd04779 224308003066 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 224308003067 DNA binding residues [nucleotide binding] 224308003068 putative dimer interface [polypeptide binding]; other site 224308003069 aspartate aminotransferase; Provisional; Region: PRK06836 224308003070 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 224308003071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308003072 homodimer interface [polypeptide binding]; other site 224308003073 catalytic residue [active] 224308003074 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 224308003075 Domain of unknown function DUF21; Region: DUF21; pfam01595 224308003076 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 224308003077 Transporter associated domain; Region: CorC_HlyC; smart01091 224308003078 camphor resistance protein CrcB; Provisional; Region: PRK14213 224308003079 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 224308003080 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 224308003081 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 224308003082 active site 224308003083 catalytic site [active] 224308003084 metal binding site [ion binding]; metal-binding site 224308003085 dimer interface [polypeptide binding]; other site 224308003086 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 224308003087 Mechanosensitive ion channel; Region: MS_channel; pfam00924 224308003088 NAD-dependent deacetylase; Provisional; Region: PRK00481 224308003089 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 224308003090 NAD+ binding site [chemical binding]; other site 224308003091 substrate binding site [chemical binding]; other site 224308003092 Zn binding site [ion binding]; other site 224308003093 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 224308003094 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 224308003095 NodB motif; other site 224308003096 active site 224308003097 catalytic site [active] 224308003098 Zn binding site [ion binding]; other site 224308003099 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 224308003100 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 224308003101 homodimer interface [polypeptide binding]; other site 224308003102 substrate-cofactor binding pocket; other site 224308003103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308003104 catalytic residue [active] 224308003105 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 224308003106 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 224308003107 Ligand Binding Site [chemical binding]; other site 224308003108 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224308003109 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 224308003110 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224308003111 Walker A/P-loop; other site 224308003112 ATP binding site [chemical binding]; other site 224308003113 Q-loop/lid; other site 224308003114 ABC transporter signature motif; other site 224308003115 Walker B; other site 224308003116 D-loop; other site 224308003117 H-loop/switch region; other site 224308003118 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 224308003119 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224308003120 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 224308003121 Walker A/P-loop; other site 224308003122 ATP binding site [chemical binding]; other site 224308003123 Q-loop/lid; other site 224308003124 ABC transporter signature motif; other site 224308003125 Walker B; other site 224308003126 D-loop; other site 224308003127 H-loop/switch region; other site 224308003128 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 224308003129 NADH(P)-binding; Region: NAD_binding_10; pfam13460 224308003130 NAD binding site [chemical binding]; other site 224308003131 substrate binding site [chemical binding]; other site 224308003132 putative active site [active] 224308003133 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 224308003134 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 224308003135 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 224308003136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 224308003137 hypothetical protein; Provisional; Region: PRK13676 224308003138 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 224308003139 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 224308003140 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 224308003141 active site 224308003142 motif I; other site 224308003143 motif II; other site 224308003144 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 224308003145 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 224308003146 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 224308003147 FeS/SAM binding site; other site 224308003148 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 224308003149 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 224308003150 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 224308003151 TrkA-C domain; Region: TrkA_C; pfam02080 224308003152 enoyl-CoA hydratase; Provisional; Region: PRK07659 224308003153 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 224308003154 substrate binding site [chemical binding]; other site 224308003155 oxyanion hole (OAH) forming residues; other site 224308003156 trimer interface [polypeptide binding]; other site 224308003157 YhzD-like protein; Region: YhzD; pfam14120 224308003158 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 224308003159 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 224308003160 Walker A/P-loop; other site 224308003161 ATP binding site [chemical binding]; other site 224308003162 Q-loop/lid; other site 224308003163 ABC transporter signature motif; other site 224308003164 Walker B; other site 224308003165 D-loop; other site 224308003166 H-loop/switch region; other site 224308003167 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 224308003168 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 224308003169 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 224308003170 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 224308003171 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 224308003172 active site 224308003173 metal binding site [ion binding]; metal-binding site 224308003174 DNA binding site [nucleotide binding] 224308003175 Uncharacterized conserved protein [Function unknown]; Region: COG4717 224308003176 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 224308003177 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 224308003178 generic binding surface II; other site 224308003179 generic binding surface I; other site 224308003180 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 224308003181 Zn2+ binding site [ion binding]; other site 224308003182 Mg2+ binding site [ion binding]; other site 224308003183 Sporulation protein YhaL; Region: Spore_YhaL; pfam14147 224308003184 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 224308003185 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 224308003186 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 224308003187 Protein of unknown function (DUF1878); Region: DUF1878; pfam08963 224308003188 transcriptional regulator Hpr; Provisional; Region: PRK13777 224308003189 MarR family; Region: MarR; pfam01047 224308003190 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 224308003191 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 224308003192 homodimer interface [polypeptide binding]; other site 224308003193 substrate-cofactor binding pocket; other site 224308003194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308003195 catalytic residue [active] 224308003196 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 224308003197 HIT family signature motif; other site 224308003198 catalytic residue [active] 224308003199 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 224308003200 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 224308003201 Walker A/P-loop; other site 224308003202 ATP binding site [chemical binding]; other site 224308003203 Q-loop/lid; other site 224308003204 ABC transporter signature motif; other site 224308003205 Walker B; other site 224308003206 D-loop; other site 224308003207 H-loop/switch region; other site 224308003208 Predicted ABC-type exoprotein transport system, permease component [Intracellular trafficking and secretion]; Region: EcsB; COG4473 224308003209 EcsC protein family; Region: EcsC; pfam12787 224308003210 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 224308003211 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 224308003212 metal binding site [ion binding]; metal-binding site 224308003213 dimer interface [polypeptide binding]; other site 224308003214 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 224308003215 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 224308003216 Transglycosylase; Region: Transgly; pfam00912 224308003217 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 224308003218 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 224308003219 substrate binding site [chemical binding]; other site 224308003220 active site 224308003221 ferrochelatase; Provisional; Region: PRK12435 224308003222 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 224308003223 C-terminal domain interface [polypeptide binding]; other site 224308003224 active site 224308003225 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 224308003226 active site 224308003227 N-terminal domain interface [polypeptide binding]; other site 224308003228 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 224308003229 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 224308003230 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308003231 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308003232 Predicted membrane protein [Function unknown]; Region: COG1511 224308003233 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 224308003234 Pex19 protein family; Region: Pex19; pfam04614 224308003235 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 224308003236 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 224308003237 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 224308003238 dimer interface [polypeptide binding]; other site 224308003239 active site 224308003240 CoA binding pocket [chemical binding]; other site 224308003241 Predicted membrane protein [Function unknown]; Region: COG4377 224308003242 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 224308003243 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 224308003244 putative oligomer interface [polypeptide binding]; other site 224308003245 putative active site [active] 224308003246 metal binding site [ion binding]; metal-binding site 224308003247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4405 224308003248 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 224308003249 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 224308003250 YhfH-like protein; Region: YhfH; pfam14149 224308003251 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 224308003252 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 224308003253 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 224308003254 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 224308003255 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 224308003256 NADH(P)-binding; Region: NAD_binding_10; pfam13460 224308003257 NAD(P) binding site [chemical binding]; other site 224308003258 putative active site [active] 224308003259 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 224308003260 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 224308003261 acyl-activating enzyme (AAE) consensus motif; other site 224308003262 putative AMP binding site [chemical binding]; other site 224308003263 putative active site [active] 224308003264 putative CoA binding site [chemical binding]; other site 224308003265 Peptidase family M48; Region: Peptidase_M48; pfam01435 224308003266 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 224308003267 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 224308003268 active site 224308003269 catalytic residues [active] 224308003270 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 224308003271 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308003272 Coenzyme A binding pocket [chemical binding]; other site 224308003273 Yhfp putative quinone oxidoreductases; Region: MDR_yhfp_like; cd08289 224308003274 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 224308003275 putative NADP binding site [chemical binding]; other site 224308003276 putative dimer interface [polypeptide binding]; other site 224308003277 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 224308003278 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 224308003279 siderophore binding site; other site 224308003280 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 224308003281 catalytic core [active] 224308003282 acetyl-CoA acetyltransferase; Provisional; Region: PRK06690 224308003283 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 224308003284 dimer interface [polypeptide binding]; other site 224308003285 active site 224308003286 acyl-CoA synthetase; Validated; Region: PRK07638 224308003287 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 224308003288 Adenylate forming domain, Class I; Region: AFD_class_I; cd04433 224308003289 acyl-activating enzyme (AAE) consensus motif; other site 224308003290 acyl-activating enzyme (AAE) consensus motif; other site 224308003291 AMP binding site [chemical binding]; other site 224308003292 active site 224308003293 CoA binding site [chemical binding]; other site 224308003294 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 224308003295 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 224308003296 heme-binding site [chemical binding]; other site 224308003297 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 224308003298 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 224308003299 dimer interface [polypeptide binding]; other site 224308003300 putative CheW interface [polypeptide binding]; other site 224308003301 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 224308003302 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 224308003303 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 224308003304 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 224308003305 [2Fe-2S] cluster binding site [ion binding]; other site 224308003306 short chain dehydrogenase; Provisional; Region: PRK06701 224308003307 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 224308003308 NAD binding site [chemical binding]; other site 224308003309 metal binding site [ion binding]; metal-binding site 224308003310 active site 224308003311 IDEAL domain; Region: IDEAL; pfam08858 224308003312 Genetic competence transcription factor [Transcription]; Region: ComK; COG4903 224308003313 oxidoreductase; Provisional; Region: PRK07985 224308003314 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 224308003315 NAD binding site [chemical binding]; other site 224308003316 metal binding site [ion binding]; metal-binding site 224308003317 active site 224308003318 Excalibur calcium-binding domain; Region: Excalibur; cl05460 224308003319 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 224308003320 Na binding site [ion binding]; other site 224308003321 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 224308003322 Uncharacterized conserved protein [Function unknown]; Region: COG0398 224308003323 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 224308003324 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 224308003325 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 224308003326 Catalytic site [active] 224308003327 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 224308003328 hypothetical protein; Provisional; Region: PRK08244 224308003329 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 224308003330 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308003331 MarR family; Region: MarR; pfam01047 224308003332 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 224308003333 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 224308003334 putative substrate translocation pore; other site 224308003335 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224308003336 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224308003337 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224308003338 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 224308003339 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 224308003340 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 224308003341 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 224308003342 inhibitor-cofactor binding pocket; inhibition site 224308003343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308003344 catalytic residue [active] 224308003345 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224308003346 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224308003347 DNA binding site [nucleotide binding] 224308003348 domain linker motif; other site 224308003349 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 224308003350 putative dimerization interface [polypeptide binding]; other site 224308003351 putative ligand binding site [chemical binding]; other site 224308003352 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 224308003353 Putative ammonia monooxygenase; Region: AmoA; pfam05145 224308003354 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 224308003355 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 224308003356 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308003357 putative substrate translocation pore; other site 224308003358 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 224308003359 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 224308003360 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 224308003361 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 224308003362 dimerization interface [polypeptide binding]; other site 224308003363 Uncharacterized conserved protein [Function unknown]; Region: COG1633 224308003364 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 224308003365 dinuclear metal binding motif [ion binding]; other site 224308003366 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 224308003367 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 224308003368 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 224308003369 Part of AAA domain; Region: AAA_19; pfam13245 224308003370 Family description; Region: UvrD_C_2; pfam13538 224308003371 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 224308003372 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 224308003373 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 224308003374 active site 224308003375 metal binding site [ion binding]; metal-binding site 224308003376 DNA binding site [nucleotide binding] 224308003377 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 224308003378 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 224308003379 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 224308003380 Walker A/P-loop; other site 224308003381 ATP binding site [chemical binding]; other site 224308003382 Q-loop/lid; other site 224308003383 ABC transporter signature motif; other site 224308003384 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 224308003385 ABC transporter signature motif; other site 224308003386 Walker B; other site 224308003387 D-loop; other site 224308003388 H-loop/switch region; other site 224308003389 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; cl00083 224308003390 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 224308003391 Protein of unknown function (DUF2772); Region: DUF2772; pfam10970 224308003392 Protein of unknown function (DUF2772); Region: DUF2772; pfam10970 224308003393 Spore germination protein GerPC; Region: GerPC; pfam10737 224308003394 Protein of unknown function (DUF2539); Region: DUF2539; pfam10803 224308003395 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 224308003396 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 224308003397 CotH protein; Region: CotH; pfam08757 224308003398 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 224308003399 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 224308003400 hypothetical protein; Provisional; Region: PRK13673 224308003401 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 224308003402 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 224308003403 active site 224308003404 catalytic triad [active] 224308003405 Protein of unknown function (DUF2777); Region: DUF2777; pfam10949 224308003406 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 224308003407 active site 224308003408 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 224308003409 dimer interface [polypeptide binding]; other site 224308003410 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 224308003411 Ligand Binding Site [chemical binding]; other site 224308003412 Molecular Tunnel; other site 224308003413 DinB family; Region: DinB; cl17821 224308003414 DinB superfamily; Region: DinB_2; pfam12867 224308003415 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 224308003416 substrate binding pocket [chemical binding]; other site 224308003417 aspartate-rich region 2; other site 224308003418 substrate-Mg2+ binding site; other site 224308003419 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 224308003420 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 224308003421 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 224308003422 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308003423 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 224308003424 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308003425 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224308003426 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224308003427 DNA binding site [nucleotide binding] 224308003428 domain linker motif; other site 224308003429 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 224308003430 dimerization interface [polypeptide binding]; other site 224308003431 ligand binding site [chemical binding]; other site 224308003432 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224308003433 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224308003434 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224308003435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 224308003436 Lysine efflux permease [General function prediction only]; Region: COG1279 224308003437 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 224308003438 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308003439 DNA-binding site [nucleotide binding]; DNA binding site 224308003440 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 224308003441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308003442 homodimer interface [polypeptide binding]; other site 224308003443 catalytic residue [active] 224308003444 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 224308003445 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 224308003446 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 224308003447 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 224308003448 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 224308003449 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 224308003450 ligand-binding site [chemical binding]; other site 224308003451 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 224308003452 ATP-sulfurylase; Region: ATPS; cd00517 224308003453 active site 224308003454 HXXH motif; other site 224308003455 flexible loop; other site 224308003456 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 224308003457 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 224308003458 Active Sites [active] 224308003459 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 224308003460 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 224308003461 (2R)-phospho-3-sulfolactate synthase (PSL synthase, CoM biosynthesis) [Coenzyme transport and metabolism]; Region: COG1809 224308003462 Uncharacterized conserved protein [Function unknown]; Region: COG1284 224308003463 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224308003464 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 224308003465 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 224308003466 active site pocket [active] 224308003467 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 224308003468 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308003469 putative substrate translocation pore; other site 224308003470 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 224308003471 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308003472 Coenzyme A binding pocket [chemical binding]; other site 224308003473 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 224308003474 Coenzyme A binding pocket [chemical binding]; other site 224308003475 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 224308003476 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 224308003477 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 224308003478 FAD binding site [chemical binding]; other site 224308003479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 224308003480 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 224308003481 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 224308003482 S1 domain; Region: S1_2; pfam13509 224308003483 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 224308003484 RNA binding site [nucleotide binding]; other site 224308003485 antimicrobial peptide, SdpC family; Region: toxin_SdpC; TIGR04032 224308003486 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 224308003487 antimicrobial peptide system protein, SdpA family; Region: export_SdpA; TIGR04034 224308003488 Predicted transcriptional regulators [Transcription]; Region: COG1695 224308003489 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 224308003490 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 224308003491 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 224308003492 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 224308003493 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 224308003494 active site 224308003495 Zn binding site [ion binding]; other site 224308003496 EDD domain protein, DegV family; Region: DegV; TIGR00762 224308003497 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 224308003498 Uncharacterized conserved protein [Function unknown]; Region: COG1284 224308003499 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224308003500 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224308003501 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 224308003502 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 224308003503 Protein of unknown function (DUF3813); Region: DUF3813; pfam12758 224308003504 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 224308003505 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 224308003506 motif II; other site 224308003507 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 224308003508 esterase; Provisional; Region: PRK10566 224308003509 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 224308003510 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 224308003511 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 224308003512 FAD binding domain; Region: FAD_binding_4; pfam01565 224308003513 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 224308003514 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308003515 putative substrate translocation pore; other site 224308003516 N-acetyl-gamma-glutamyl-phosphate reductase, common form; Region: argC; TIGR01850 224308003517 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 224308003518 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 224308003519 heterotetramer interface [polypeptide binding]; other site 224308003520 active site pocket [active] 224308003521 cleavage site 224308003522 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 224308003523 nucleotide binding site [chemical binding]; other site 224308003524 N-acetyl-L-glutamate binding site [chemical binding]; other site 224308003525 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 224308003526 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 224308003527 inhibitor-cofactor binding pocket; inhibition site 224308003528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308003529 catalytic residue [active] 224308003530 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 224308003531 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 224308003532 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 224308003533 catalytic site [active] 224308003534 subunit interface [polypeptide binding]; other site 224308003535 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 224308003536 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 224308003537 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 224308003538 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 224308003539 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 224308003540 ATP-grasp domain; Region: ATP-grasp_4; cl17255 224308003541 ornithine carbamoyltransferase; Provisional; Region: PRK00779 224308003542 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 224308003543 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 224308003544 YjzC-like protein; Region: YjzC; pfam14168 224308003545 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 224308003546 UDP-apiose/xylose synthase; Region: PLN02427 224308003547 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 224308003548 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 224308003549 putative ligand binding site [chemical binding]; other site 224308003550 ComZ; Region: ComZ; pfam10815 224308003551 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 224308003552 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 224308003553 dimer interface [polypeptide binding]; other site 224308003554 active site 224308003555 CoA binding pocket [chemical binding]; other site 224308003556 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 224308003557 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 224308003558 dimer interface [polypeptide binding]; other site 224308003559 active site 224308003560 Predicted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5504 224308003561 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 224308003562 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224308003563 Walker A/P-loop; other site 224308003564 ATP binding site [chemical binding]; other site 224308003565 Q-loop/lid; other site 224308003566 ABC transporter signature motif; other site 224308003567 Walker B; other site 224308003568 D-loop; other site 224308003569 H-loop/switch region; other site 224308003570 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 224308003571 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 224308003572 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224308003573 Walker A/P-loop; other site 224308003574 ATP binding site [chemical binding]; other site 224308003575 Q-loop/lid; other site 224308003576 ABC transporter signature motif; other site 224308003577 Walker B; other site 224308003578 D-loop; other site 224308003579 H-loop/switch region; other site 224308003580 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 224308003581 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId: 15588833; Product type prc : receptor 224308003582 Evidence 2a: Function of homologous gene experimentally demonstrated in an other organism; PubMedId: 15588833, 7997159; Product type lp : lipoprotein 224308003583 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 224308003584 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 224308003585 dimer interface [polypeptide binding]; other site 224308003586 conserved gate region; other site 224308003587 putative PBP binding loops; other site 224308003588 ABC-ATPase subunit interface; other site 224308003589 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 224308003590 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 224308003591 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 224308003592 dimer interface [polypeptide binding]; other site 224308003593 conserved gate region; other site 224308003594 putative PBP binding loops; other site 224308003595 ABC-ATPase subunit interface; other site 224308003596 Protein of unknown function (DUF3603); Region: DUF3603; pfam12227 224308003597 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 224308003598 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 224308003599 active site 224308003600 HIGH motif; other site 224308003601 dimer interface [polypeptide binding]; other site 224308003602 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 224308003603 KMSKS motif; other site 224308003604 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 224308003605 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 224308003606 peptide binding site [polypeptide binding]; other site 224308003607 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 224308003608 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 224308003609 dimer interface [polypeptide binding]; other site 224308003610 conserved gate region; other site 224308003611 putative PBP binding loops; other site 224308003612 ABC-ATPase subunit interface; other site 224308003613 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 224308003614 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 224308003615 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 224308003616 dimer interface [polypeptide binding]; other site 224308003617 conserved gate region; other site 224308003618 putative PBP binding loops; other site 224308003619 ABC-ATPase subunit interface; other site 224308003620 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 224308003621 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224308003622 Walker A/P-loop; other site 224308003623 ATP binding site [chemical binding]; other site 224308003624 Q-loop/lid; other site 224308003625 ABC transporter signature motif; other site 224308003626 Walker B; other site 224308003627 D-loop; other site 224308003628 H-loop/switch region; other site 224308003629 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 224308003630 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 224308003631 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224308003632 Walker A/P-loop; other site 224308003633 ATP binding site [chemical binding]; other site 224308003634 Q-loop/lid; other site 224308003635 ABC transporter signature motif; other site 224308003636 Walker B; other site 224308003637 D-loop; other site 224308003638 H-loop/switch region; other site 224308003639 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 224308003640 H+ Antiporter protein; Region: 2A0121; TIGR00900 224308003641 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 224308003642 ArsC family; Region: ArsC; pfam03960 224308003643 putative catalytic residues [active] 224308003644 thiol/disulfide switch; other site 224308003645 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 224308003646 Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]; Region: MecA; COG4862 224308003647 Competence protein CoiA-like family, contains a predicted nuclease domain [General function prediction only]; Region: CoiA; COG4469 224308003648 oligoendopeptidase F; Region: pepF; TIGR00181 224308003649 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 224308003650 active site 224308003651 Zn binding site [ion binding]; other site 224308003652 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 224308003653 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 224308003654 catalytic residues [active] 224308003655 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 224308003656 apolar tunnel; other site 224308003657 heme binding site [chemical binding]; other site 224308003658 dimerization interface [polypeptide binding]; other site 224308003659 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 224308003660 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 224308003661 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224308003662 catalytic residue [active] 224308003663 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 224308003664 putative active site [active] 224308003665 putative metal binding residues [ion binding]; other site 224308003666 signature motif; other site 224308003667 putative triphosphate binding site [ion binding]; other site 224308003668 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 224308003669 synthetase active site [active] 224308003670 NTP binding site [chemical binding]; other site 224308003671 metal binding site [ion binding]; metal-binding site 224308003672 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 224308003673 ATP-NAD kinase; Region: NAD_kinase; pfam01513 224308003674 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 224308003675 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; cl09940 224308003676 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 224308003677 active site 224308003678 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 224308003679 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 224308003680 active site 224308003681 metal binding site [ion binding]; metal-binding site 224308003682 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 224308003683 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 224308003684 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 224308003685 TrkA-N domain; Region: TrkA_N; pfam02254 224308003686 TrkA-C domain; Region: TrkA_C; pfam02080 224308003687 thiaminase II; Region: salvage_TenA; TIGR04306 224308003688 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 224308003689 thiamine phosphate binding site [chemical binding]; other site 224308003690 active site 224308003691 pyrophosphate binding site [ion binding]; other site 224308003692 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 224308003693 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 224308003694 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 224308003695 thiS-thiF/thiG interaction site; other site 224308003696 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 224308003697 ThiS interaction site; other site 224308003698 putative active site [active] 224308003699 tetramer interface [polypeptide binding]; other site 224308003700 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 224308003701 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 224308003702 ATP binding site [chemical binding]; other site 224308003703 substrate interface [chemical binding]; other site 224308003704 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 224308003705 dimer interface [polypeptide binding]; other site 224308003706 substrate binding site [chemical binding]; other site 224308003707 ATP binding site [chemical binding]; other site 224308003708 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 224308003709 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 224308003710 NAD binding site [chemical binding]; other site 224308003711 homotetramer interface [polypeptide binding]; other site 224308003712 homodimer interface [polypeptide binding]; other site 224308003713 substrate binding site [chemical binding]; other site 224308003714 active site 224308003715 Spore coat protein CotO; Region: Spore_coat_CotO; pfam14153 224308003716 Spore coat protein Z; Region: Spore-coat_CotZ; pfam10612 224308003717 Spore coat protein Z; Region: Spore-coat_CotZ; pfam10612 224308003718 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 224308003719 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 224308003720 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 224308003721 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 224308003722 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 224308003723 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 224308003724 Part of AAA domain; Region: AAA_19; pfam13245 224308003725 Family description; Region: UvrD_C_2; pfam13538 224308003726 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308003727 Coenzyme A binding pocket [chemical binding]; other site 224308003728 hypothetical protein; Provisional; Region: PRK13679 224308003729 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 224308003730 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 224308003731 Putative esterase; Region: Esterase; pfam00756 224308003732 cystathionine gamma-synthase; Reviewed; Region: PRK08247 224308003733 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 224308003734 homodimer interface [polypeptide binding]; other site 224308003735 substrate-cofactor binding pocket; other site 224308003736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308003737 catalytic residue [active] 224308003738 cystathionine beta-lyase; Provisional; Region: PRK08064 224308003739 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 224308003740 homodimer interface [polypeptide binding]; other site 224308003741 substrate-cofactor binding pocket; other site 224308003742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308003743 catalytic residue [active] 224308003744 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 224308003745 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 224308003746 Predicted integral membrane protein [Function unknown]; Region: COG5505 224308003747 Putative amidase domain; Region: Amidase_6; pfam12671 224308003748 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 224308003749 YjcQ protein; Region: YjcQ; pfam09639 224308003750 Uncharacterized conserved protein [Function unknown]; Region: COG5484 224308003751 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 224308003752 Uncharacterized conserved protein [Function unknown]; Region: COG1359 224308003753 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12748 224308003754 classical (c) SDRs; Region: SDR_c; cd05233 224308003755 NAD(P) binding site [chemical binding]; other site 224308003756 active site 224308003757 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 224308003758 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 224308003759 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 224308003760 HTH domain; Region: HTH_11; pfam08279 224308003761 PRD domain; Region: PRD; pfam00874 224308003762 PRD domain; Region: PRD; pfam00874 224308003763 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 224308003764 active site 224308003765 P-loop; other site 224308003766 phosphorylation site [posttranslational modification] 224308003767 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 224308003768 active site 224308003769 phosphorylation site [posttranslational modification] 224308003770 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 224308003771 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 224308003772 active site 224308003773 P-loop; other site 224308003774 phosphorylation site [posttranslational modification] 224308003775 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 224308003776 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 224308003777 active site 224308003778 phosphorylation site [posttranslational modification] 224308003779 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 224308003780 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 224308003781 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 224308003782 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 224308003783 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 224308003784 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 224308003785 putative deacylase active site [active] 224308003786 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 224308003787 Domain of unknown function (DUF4306); Region: DUF4306; pfam14154 224308003788 Polyprenyltransferase (cytochrome oxidase assembly factor) [Posttranslational modification, protein turnover, chaperones]; Region: CyoE; COG0109 224308003789 UbiA prenyltransferase family; Region: UbiA; pfam01040 224308003790 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 224308003791 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 224308003792 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 224308003793 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 224308003794 NodB motif; other site 224308003795 active site 224308003796 catalytic site [active] 224308003797 Zn binding site [ion binding]; other site 224308003798 Protein of unknown function (DUF2690); Region: DUF2690; pfam10901 224308003799 Putative motility protein; Region: YjfB_motility; pfam14070 224308003800 Predicted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5504 224308003801 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 224308003802 Domain of unknown function (DUF4309); Region: DUF4309; pfam14172 224308003803 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 224308003804 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 224308003805 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 224308003806 4Fe-4S binding domain; Region: Fer4_6; pfam12837 224308003807 4Fe-4S binding domain; Region: Fer4; pfam00037 224308003808 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 224308003809 [4Fe-4S] binding site [ion binding]; other site 224308003810 molybdopterin cofactor binding site; other site 224308003811 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 224308003812 molybdopterin cofactor binding site; other site 224308003813 Uncharacterized conserved protein [Function unknown]; Region: COG2427 224308003814 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 224308003815 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 224308003816 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 224308003817 nudix motif; other site 224308003818 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 224308003819 Cytochrome P450; Region: p450; cl12078 224308003820 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 224308003821 glycosyltransferase, MGT family; Region: MGT; TIGR01426 224308003822 active site 224308003823 TDP-binding site; other site 224308003824 acceptor substrate-binding pocket; other site 224308003825 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 224308003826 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 224308003827 active site 224308003828 TIGR00245 family protein; Region: TIGR00245 224308003829 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 224308003830 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 224308003831 Walker A/P-loop; other site 224308003832 ATP binding site [chemical binding]; other site 224308003833 Q-loop/lid; other site 224308003834 ABC transporter signature motif; other site 224308003835 Walker B; other site 224308003836 D-loop; other site 224308003837 H-loop/switch region; other site 224308003838 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 224308003839 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 224308003840 Uncharacterized conserved protein [Function unknown]; Region: COG2427 224308003841 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 224308003842 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224308003843 Glucuronate isomerase; Region: UxaC; pfam02614 224308003844 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 224308003845 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 224308003846 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 224308003847 putative substrate translocation pore; other site 224308003848 Malate/L-lactate dehydrogenase; Region: Ldh_2; pfam02615 224308003849 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 224308003850 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 224308003851 putative NAD(P) binding site [chemical binding]; other site 224308003852 catalytic Zn binding site [ion binding]; other site 224308003853 structural Zn binding site [ion binding]; other site 224308003854 mannonate dehydratase; Provisional; Region: PRK03906 224308003855 mannonate dehydratase; Region: uxuA; TIGR00695 224308003856 D-mannonate oxidoreductase; Provisional; Region: PRK08277 224308003857 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 224308003858 putative NAD(P) binding site [chemical binding]; other site 224308003859 active site 224308003860 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 224308003861 D-galactonate transporter; Region: 2A0114; TIGR00893 224308003862 putative substrate translocation pore; other site 224308003863 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224308003864 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224308003865 DNA binding site [nucleotide binding] 224308003866 domain linker motif; other site 224308003867 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 224308003868 dimerization interface [polypeptide binding]; other site 224308003869 ligand binding site [chemical binding]; other site 224308003870 altronate oxidoreductase; Provisional; Region: PRK03643 224308003871 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 224308003872 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 224308003873 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 224308003874 galactarate dehydratase; Region: galactar-dH20; TIGR03248 224308003875 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 224308003876 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 224308003877 DinB family; Region: DinB; pfam05163 224308003878 DinB superfamily; Region: DinB_2; pfam12867 224308003879 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 224308003880 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 224308003881 Walker A motif; other site 224308003882 ATP binding site [chemical binding]; other site 224308003883 Walker B motif; other site 224308003884 arginine finger; other site 224308003885 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 224308003886 binding surface 224308003887 TPR motif; other site 224308003888 Tetratricopeptide repeat; Region: TPR_12; pfam13424 224308003889 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 224308003890 binding surface 224308003891 TPR motif; other site 224308003892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 224308003893 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 224308003894 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 224308003895 amidase catalytic site [active] 224308003896 Zn binding residues [ion binding]; other site 224308003897 substrate binding site [chemical binding]; other site 224308003898 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 224308003899 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308003900 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 224308003901 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224308003902 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 224308003903 pentamer interface [polypeptide binding]; other site 224308003904 dodecaamer interface [polypeptide binding]; other site 224308003905 Phage-related replication protein [General function prediction only]; Region: COG4195 224308003906 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 224308003907 dimanganese center [ion binding]; other site 224308003908 Domain of unknown function (DUF955); Region: DUF955; pfam06114 224308003909 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224308003910 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 224308003911 non-specific DNA binding site [nucleotide binding]; other site 224308003912 salt bridge; other site 224308003913 sequence-specific DNA binding site [nucleotide binding]; other site 224308003914 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; cl17220 224308003915 putative Zn2+ binding site [ion binding]; other site 224308003916 putative DNA binding site [nucleotide binding]; other site 224308003917 hypothetical protein; Provisional; Region: PRK06921 224308003918 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 224308003919 Walker A motif; other site 224308003920 ATP binding site [chemical binding]; other site 224308003921 Walker B motif; other site 224308003922 positive control sigma-like factor; Validated; Region: PRK06930 224308003923 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 224308003924 DNA binding residues [nucleotide binding] 224308003925 Phage terminase small subunit; Region: Phage_terminase; pfam10668 224308003926 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: XtmA; COG3728 224308003927 Phage terminase large subunit [General function prediction only]; Region: XtmB; COG1783 224308003928 Terminase-like family; Region: Terminase_6; pfam03237 224308003929 Bacteriophage capsid portal protein [General function prediction only]; Region: COG5518 224308003930 Phage capsid family; Region: Phage_capsid; pfam05065 224308003931 Putative Head-Tail Connector Protein Yqbg from Bacillus subtilis and similar proteins; Region: Yqbg; cd08053 224308003932 Domain of unknown function (DUF3599); Region: DUF3599; pfam12206 224308003933 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 224308003934 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 224308003935 Phage XkdN-like protein; Region: XkdN; pfam08890 224308003936 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 224308003937 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 224308003938 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224308003939 catalytic residue [active] 224308003940 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 224308003941 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308003942 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 224308003943 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 224308003944 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 224308003945 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 224308003946 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 224308003947 XkdW protein; Region: XkdW; pfam09636 224308003948 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; cl09900 224308003949 Haemolysin XhlA; Region: XhlA; pfam10779 224308003950 holin, SPP1 family; Region: holin_SPP1; TIGR01592 224308003951 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 224308003952 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 224308003953 amidase catalytic site [active] 224308003954 Zn binding residues [ion binding]; other site 224308003955 substrate binding site [chemical binding]; other site 224308003956 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308003957 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 224308003958 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224308003959 Antitoxin SpoIISB, type II toxin-antitoxin system; Region: SpoIISB_antitox; pfam14185 224308003960 Toxin SpoIISA, type II toxin-antitoxin system; Region: SpoIISA_toxin; pfam14171 224308003961 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 224308003962 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 224308003963 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 224308003964 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 224308003965 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308003966 Zn binding site [ion binding]; other site 224308003967 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 224308003968 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308003969 Zn binding site [ion binding]; other site 224308003970 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 224308003971 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 224308003972 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 224308003973 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 224308003974 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 224308003975 Ligand binding site; other site 224308003976 Putative Catalytic site; other site 224308003977 DXD motif; other site 224308003978 Trypsin; Region: Trypsin; pfam00089 224308003979 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 224308003980 protein binding site [polypeptide binding]; other site 224308003981 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06928 224308003982 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 224308003983 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA; cd00281 224308003984 SxDxEG motif; other site 224308003985 active site 224308003986 metal binding site [ion binding]; metal-binding site 224308003987 homopentamer interface [polypeptide binding]; other site 224308003988 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 224308003989 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 224308003990 dimer interface [polypeptide binding]; other site 224308003991 conserved gate region; other site 224308003992 putative PBP binding loops; other site 224308003993 ABC-ATPase subunit interface; other site 224308003994 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 224308003995 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 224308003996 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 224308003997 dimer interface [polypeptide binding]; other site 224308003998 conserved gate region; other site 224308003999 putative PBP binding loops; other site 224308004000 ABC-ATPase subunit interface; other site 224308004001 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 224308004002 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224308004003 Walker A/P-loop; other site 224308004004 ATP binding site [chemical binding]; other site 224308004005 Q-loop/lid; other site 224308004006 ABC transporter signature motif; other site 224308004007 Walker B; other site 224308004008 D-loop; other site 224308004009 H-loop/switch region; other site 224308004010 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 224308004011 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 224308004012 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 224308004013 peptide binding site [polypeptide binding]; other site 224308004014 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 224308004015 dimer interface [polypeptide binding]; other site 224308004016 catalytic triad [active] 224308004017 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 224308004018 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 224308004019 active site 224308004020 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 224308004021 NlpC/P60 family; Region: NLPC_P60; pfam00877 224308004022 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 224308004023 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224308004024 Walker A/P-loop; other site 224308004025 ATP binding site [chemical binding]; other site 224308004026 Q-loop/lid; other site 224308004027 ABC transporter signature motif; other site 224308004028 Walker B; other site 224308004029 D-loop; other site 224308004030 H-loop/switch region; other site 224308004031 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 224308004032 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 224308004033 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 224308004034 Amidinotransferase; Region: Amidinotransf; pfam02274 224308004035 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 224308004036 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 224308004037 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 224308004038 heme-binding site [chemical binding]; other site 224308004039 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 224308004040 FAD binding pocket [chemical binding]; other site 224308004041 FAD binding motif [chemical binding]; other site 224308004042 phosphate binding motif [ion binding]; other site 224308004043 beta-alpha-beta structure motif; other site 224308004044 NAD binding pocket [chemical binding]; other site 224308004045 Heme binding pocket [chemical binding]; other site 224308004046 Predicted membrane protein [Function unknown]; Region: COG2323 224308004047 DinB superfamily; Region: DinB_2; pfam12867 224308004048 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 224308004049 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 224308004050 Small Multidrug Resistance protein; Region: Multi_Drug_Res; pfam00893 224308004051 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 224308004052 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 224308004053 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 224308004054 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 224308004055 putative active site [active] 224308004056 putative substrate binding site [chemical binding]; other site 224308004057 putative cosubstrate binding site; other site 224308004058 catalytic site [active] 224308004059 glutamate 5-kinase; Region: proB; TIGR01027 224308004060 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 224308004061 nucleotide binding site [chemical binding]; other site 224308004062 homotetrameric interface [polypeptide binding]; other site 224308004063 putative phosphate binding site [ion binding]; other site 224308004064 putative allosteric binding site; other site 224308004065 PUA domain; Region: PUA; pfam01472 224308004066 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 224308004067 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 224308004068 putative catalytic cysteine [active] 224308004069 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 224308004070 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308004071 MarR family; Region: MarR; pfam01047 224308004072 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 224308004073 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 224308004074 nucleoside/Zn binding site; other site 224308004075 dimer interface [polypeptide binding]; other site 224308004076 catalytic motif [active] 224308004077 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 224308004078 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Region: met_syn_B12ind; TIGR01371 224308004079 THF binding site; other site 224308004080 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 224308004081 substrate binding site [chemical binding]; other site 224308004082 THF binding site; other site 224308004083 zinc-binding site [ion binding]; other site 224308004084 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 224308004085 active site 224308004086 catalytic residues [active] 224308004087 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 224308004088 Cobalt transport protein; Region: CbiQ; pfam02361 224308004089 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 224308004090 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 224308004091 Walker A/P-loop; other site 224308004092 ATP binding site [chemical binding]; other site 224308004093 Q-loop/lid; other site 224308004094 ABC transporter signature motif; other site 224308004095 Walker B; other site 224308004096 D-loop; other site 224308004097 H-loop/switch region; other site 224308004098 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 224308004099 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 224308004100 Walker A/P-loop; other site 224308004101 ATP binding site [chemical binding]; other site 224308004102 Q-loop/lid; other site 224308004103 ABC transporter signature motif; other site 224308004104 Walker B; other site 224308004105 D-loop; other site 224308004106 H-loop/switch region; other site 224308004107 ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]; Region: COG4721 224308004108 YKOF-related Family; Region: Ykof; pfam07615 224308004109 YKOF-related Family; Region: Ykof; pfam07615 224308004110 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224308004111 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 224308004112 active site 224308004113 phosphorylation site [posttranslational modification] 224308004114 intermolecular recognition site; other site 224308004115 dimerization interface [polypeptide binding]; other site 224308004116 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 224308004117 DNA binding site [nucleotide binding] 224308004118 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224308004119 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 224308004120 dimerization interface [polypeptide binding]; other site 224308004121 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 224308004122 dimer interface [polypeptide binding]; other site 224308004123 phosphorylation site [posttranslational modification] 224308004124 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 224308004125 ATP binding site [chemical binding]; other site 224308004126 Mg2+ binding site [ion binding]; other site 224308004127 G-X-G motif; other site 224308004128 Predicted membrane protein [Function unknown]; Region: COG3212 224308004129 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 224308004130 Predicted membrane protein [Function unknown]; Region: COG3212 224308004131 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 224308004132 Transcriptional regulator protein (SplA); Region: SplA; pfam11132 224308004133 Evidence 5: No homology to any previously reported sequences 224308004134 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 224308004135 MgtE intracellular N domain; Region: MgtE_N; smart00924 224308004136 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 224308004137 Divalent cation transporter; Region: MgtE; pfam01769 224308004138 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 224308004139 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 224308004140 DNA binding residues [nucleotide binding] 224308004141 putative dimer interface [polypeptide binding]; other site 224308004142 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308004143 MarR family; Region: MarR; pfam01047 224308004144 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 224308004145 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 224308004146 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 224308004147 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 224308004148 putative active site [active] 224308004149 putative metal binding site [ion binding]; other site 224308004150 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 224308004151 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 224308004152 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 224308004153 Ligand binding site; other site 224308004154 Putative Catalytic site; other site 224308004155 DXD motif; other site 224308004156 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK09633 224308004157 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 224308004158 active site 224308004159 DNA binding site [nucleotide binding] 224308004160 LigD_Pol_like_3: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 3. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_3; cd04866 224308004161 nucleotide binding site [chemical binding]; other site 224308004162 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 224308004163 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 224308004164 putative DNA binding site [nucleotide binding]; other site 224308004165 putative homodimer interface [polypeptide binding]; other site 224308004166 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 224308004167 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 224308004168 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 224308004169 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 224308004170 PAS domain; Region: PAS_9; pfam13426 224308004171 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 224308004172 metal binding site [ion binding]; metal-binding site 224308004173 active site 224308004174 I-site; other site 224308004175 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 224308004176 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 224308004177 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 224308004178 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 224308004179 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 224308004180 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308004181 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 224308004182 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 224308004183 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 224308004184 heat shock protein HtpX; Provisional; Region: PRK05457 224308004185 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 224308004186 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 224308004187 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 224308004188 Acyltransferase family; Region: Acyl_transf_3; pfam01757 224308004189 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 224308004190 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 224308004191 putative active site [active] 224308004192 heme pocket [chemical binding]; other site 224308004193 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 224308004194 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 224308004195 putative active site [active] 224308004196 heme pocket [chemical binding]; other site 224308004197 PAS domain; Region: PAS; smart00091 224308004198 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 224308004199 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 224308004200 putative active site [active] 224308004201 heme pocket [chemical binding]; other site 224308004202 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 224308004203 dimer interface [polypeptide binding]; other site 224308004204 phosphorylation site [posttranslational modification] 224308004205 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 224308004206 ATP binding site [chemical binding]; other site 224308004207 Mg2+ binding site [ion binding]; other site 224308004208 G-X-G motif; other site 224308004209 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 224308004210 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 224308004211 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 224308004212 DNA binding site [nucleotide binding] 224308004213 active site 224308004214 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 224308004215 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 224308004216 Predicted kinase [General function prediction only]; Region: COG4857 224308004217 Phosphotransferase enzyme family; Region: APH; pfam01636 224308004218 Predicted amidohydrolase [General function prediction only]; Region: COG0388 224308004219 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 224308004220 putative active site [active] 224308004221 catalytic triad [active] 224308004222 putative dimer interface [polypeptide binding]; other site 224308004223 transaminase; Reviewed; Region: PRK08068 224308004224 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 224308004225 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308004226 homodimer interface [polypeptide binding]; other site 224308004227 catalytic residue [active] 224308004228 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: salvage_mtnW; TIGR03332 224308004229 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: RLP_DK-MTP-1-P-enolase; cd08209 224308004230 dimer interface [polypeptide binding]; other site 224308004231 active site 224308004232 catalytic residue [active] 224308004233 metal binding site [ion binding]; metal-binding site 224308004234 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 224308004235 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 224308004236 motif II; other site 224308004237 methylthioribulose-1-phosphate dehydratase; Reviewed; Region: mtnB; PRK06754 224308004238 intersubunit interface [polypeptide binding]; other site 224308004239 active site 224308004240 Zn2+ binding site [ion binding]; other site 224308004241 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 224308004242 Cupin domain; Region: Cupin_2; pfam07883 224308004243 Uncharacterized conserved protein [Function unknown]; Region: COG3339 224308004244 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 224308004245 Cache domain; Region: Cache_1; pfam02743 224308004246 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 224308004247 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 224308004248 dimer interface [polypeptide binding]; other site 224308004249 phosphorylation site [posttranslational modification] 224308004250 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 224308004251 ATP binding site [chemical binding]; other site 224308004252 Mg2+ binding site [ion binding]; other site 224308004253 G-X-G motif; other site 224308004254 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308004255 MarR family; Region: MarR; pfam01047 224308004256 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 224308004257 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 224308004258 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 224308004259 ligand binding site [chemical binding]; other site 224308004260 flagellar motor protein MotA; Validated; Region: PRK08124 224308004261 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 224308004262 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 224308004263 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 224308004264 Walker A motif; other site 224308004265 ATP binding site [chemical binding]; other site 224308004266 Walker B motif; other site 224308004267 arginine finger; other site 224308004268 UvrB/uvrC motif; Region: UVR; pfam02151 224308004269 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 224308004270 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 224308004271 Walker A motif; other site 224308004272 ATP binding site [chemical binding]; other site 224308004273 Walker B motif; other site 224308004274 arginine finger; other site 224308004275 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 224308004276 Uncharacterized membrane protein [Function unknown]; Region: COG3949 224308004277 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 224308004278 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 224308004279 Ligand Binding Site [chemical binding]; other site 224308004280 6-pyruvoyl tetrahydropterin synthase/QueD family protein; Region: 6PTHBS; TIGR00039 224308004281 active site 224308004282 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 224308004283 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 224308004284 FeS/SAM binding site; other site 224308004285 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 224308004286 Predicted transcriptional regulators [Transcription]; Region: COG1733 224308004287 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 224308004288 short chain dehydrogenase; Provisional; Region: PRK06500 224308004289 classical (c) SDRs; Region: SDR_c; cd05233 224308004290 NAD(P) binding site [chemical binding]; other site 224308004291 active site 224308004292 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 224308004293 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 224308004294 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 224308004295 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 224308004296 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308004297 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 224308004298 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308004299 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 224308004300 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 224308004301 active site 224308004302 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 224308004303 Protein of unknown function (DUF3219); Region: DUF3219; pfam11514 224308004304 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; cl11556 224308004305 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 224308004306 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 224308004307 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 224308004308 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 224308004309 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 224308004310 catalytic residues [active] 224308004311 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 224308004312 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 224308004313 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 224308004314 motif II; other site 224308004315 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 224308004316 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 224308004317 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 224308004318 active site 224308004319 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224308004320 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224308004321 DNA binding site [nucleotide binding] 224308004322 domain linker motif; other site 224308004323 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 224308004324 putative dimerization interface [polypeptide binding]; other site 224308004325 putative ligand binding site [chemical binding]; other site 224308004326 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 224308004327 CAT RNA binding domain; Region: CAT_RBD; pfam03123 224308004328 PRD domain; Region: PRD; pfam00874 224308004329 PRD domain; Region: PRD; pfam00874 224308004330 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 224308004331 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 224308004332 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 224308004333 active site turn [active] 224308004334 phosphorylation site [posttranslational modification] 224308004335 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 224308004336 HPr interaction site; other site 224308004337 glycerol kinase (GK) interaction site [polypeptide binding]; other site 224308004338 active site 224308004339 phosphorylation site [posttranslational modification] 224308004340 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 224308004341 dimerization domain swap beta strand [polypeptide binding]; other site 224308004342 regulatory protein interface [polypeptide binding]; other site 224308004343 active site 224308004344 regulatory phosphorylation site [posttranslational modification]; other site 224308004345 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 224308004346 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 224308004347 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 224308004348 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 224308004349 Transcriptional regulator protein (SplA); Region: SplA; pfam11132 224308004350 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 224308004351 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 224308004352 FeS/SAM binding site; other site 224308004353 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308004354 Coenzyme A binding pocket [chemical binding]; other site 224308004355 Cache domain; Region: Cache_1; pfam02743 224308004356 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 224308004357 dimerization interface [polypeptide binding]; other site 224308004358 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 224308004359 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 224308004360 dimer interface [polypeptide binding]; other site 224308004361 putative CheW interface [polypeptide binding]; other site 224308004362 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 224308004363 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 224308004364 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 224308004365 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 224308004366 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 224308004367 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 224308004368 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 224308004369 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 224308004370 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 224308004371 putative active site [active] 224308004372 heme pocket [chemical binding]; other site 224308004373 PAS fold; Region: PAS; pfam00989 224308004374 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 224308004375 putative active site [active] 224308004376 heme pocket [chemical binding]; other site 224308004377 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 224308004378 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 224308004379 putative active site [active] 224308004380 heme pocket [chemical binding]; other site 224308004381 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 224308004382 dimer interface [polypeptide binding]; other site 224308004383 phosphorylation site [posttranslational modification] 224308004384 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 224308004385 ATP binding site [chemical binding]; other site 224308004386 Mg2+ binding site [ion binding]; other site 224308004387 G-X-G motif; other site 224308004388 aminotransferase A; Validated; Region: PRK07683 224308004389 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 224308004390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308004391 homodimer interface [polypeptide binding]; other site 224308004392 catalytic residue [active] 224308004393 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 224308004394 putative CheA interaction surface; other site 224308004395 Response regulator receiver domain; Region: Response_reg; pfam00072 224308004396 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 224308004397 active site 224308004398 phosphorylation site [posttranslational modification] 224308004399 intermolecular recognition site; other site 224308004400 dimerization interface [polypeptide binding]; other site 224308004401 YkyB-like protein; Region: YkyB; pfam14177 224308004402 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 224308004403 H+ Antiporter protein; Region: 2A0121; TIGR00900 224308004404 putative substrate translocation pore; other site 224308004405 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308004406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 224308004407 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 224308004408 phosphodiesterase YaeI; Provisional; Region: PRK11340 224308004409 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 224308004410 putative active site [active] 224308004411 putative metal binding site [ion binding]; other site 224308004412 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 224308004413 short chain dehydrogenase; Provisional; Region: PRK07677 224308004414 NAD(P) binding site [chemical binding]; other site 224308004415 substrate binding site [chemical binding]; other site 224308004416 homotetramer interface [polypeptide binding]; other site 224308004417 active site 224308004418 homodimer interface [polypeptide binding]; other site 224308004419 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224308004420 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 224308004421 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224308004422 BacA is a bacterial lysin from Enterococcus faecalis that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. BacA is homologous to the YbfG and YkuG lysins of...; Region: GH25_BacA-like; cd06418 224308004423 active site 224308004424 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 224308004425 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 224308004426 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4703 224308004427 Protein of unknown function (DUF458); Region: DUF458; pfam04308 224308004428 Antirepressor AbbA; Region: AbbA_antirepres; pfam14156 224308004429 FOG: CBS domain [General function prediction only]; Region: COG0517 224308004430 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 224308004431 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308004432 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308004433 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 224308004434 dimerization interface [polypeptide binding]; other site 224308004435 flavodoxin; Provisional; Region: PRK06703 224308004436 BNR repeat-like domain; Region: BNR_2; pfam13088 224308004437 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 224308004438 flavodoxin, short chain; Region: flav_short; TIGR01753 224308004439 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 224308004440 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 224308004441 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 224308004442 active site 224308004443 trimer interface [polypeptide binding]; other site 224308004444 substrate binding site [chemical binding]; other site 224308004445 CoA binding site [chemical binding]; other site 224308004446 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 224308004447 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 224308004448 metal binding site [ion binding]; metal-binding site 224308004449 putative dimer interface [polypeptide binding]; other site 224308004450 hypothetical protein; Provisional; Region: PRK03094 224308004451 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 224308004452 Mechanosensitive ion channel; Region: MS_channel; pfam00924 224308004453 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 224308004454 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 224308004455 dimer interface [polypeptide binding]; other site 224308004456 decamer (pentamer of dimers) interface [polypeptide binding]; other site 224308004457 catalytic triad [active] 224308004458 peroxidatic and resolving cysteines [active] 224308004459 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 224308004460 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 224308004461 catalytic residues [active] 224308004462 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 224308004463 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 224308004464 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 224308004465 GTP binding site; other site 224308004466 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional; Region: PRK12475 224308004467 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 224308004468 ATP binding site [chemical binding]; other site 224308004469 substrate interface [chemical binding]; other site 224308004470 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 224308004471 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 224308004472 dimer interface [polypeptide binding]; other site 224308004473 putative functional site; other site 224308004474 putative MPT binding site; other site 224308004475 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 224308004476 Walker A motif; other site 224308004477 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 224308004478 MoaE homodimer interface [polypeptide binding]; other site 224308004479 MoaD interaction [polypeptide binding]; other site 224308004480 active site residues [active] 224308004481 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 224308004482 MoaE interaction surface [polypeptide binding]; other site 224308004483 MoeB interaction surface [polypeptide binding]; other site 224308004484 thiocarboxylated glycine; other site 224308004485 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 224308004486 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224308004487 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 224308004488 Walker A/P-loop; other site 224308004489 ATP binding site [chemical binding]; other site 224308004490 Q-loop/lid; other site 224308004491 ABC transporter signature motif; other site 224308004492 Walker B; other site 224308004493 D-loop; other site 224308004494 H-loop/switch region; other site 224308004495 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 224308004496 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224308004497 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 224308004498 Walker A/P-loop; other site 224308004499 ATP binding site [chemical binding]; other site 224308004500 Q-loop/lid; other site 224308004501 ABC transporter signature motif; other site 224308004502 Walker B; other site 224308004503 D-loop; other site 224308004504 H-loop/switch region; other site 224308004505 Yip1 domain; Region: Yip1; pfam04893 224308004506 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 224308004507 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 224308004508 HlyD family secretion protein; Region: HlyD_3; pfam13437 224308004509 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 224308004510 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 224308004511 Walker A/P-loop; other site 224308004512 ATP binding site [chemical binding]; other site 224308004513 Q-loop/lid; other site 224308004514 ABC transporter signature motif; other site 224308004515 Walker B; other site 224308004516 D-loop; other site 224308004517 H-loop/switch region; other site 224308004518 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 224308004519 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 224308004520 FtsX-like permease family; Region: FtsX; pfam02687 224308004521 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 224308004522 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 224308004523 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 224308004524 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 224308004525 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 224308004526 putative substrate binding site [chemical binding]; other site 224308004527 putative ATP binding site [chemical binding]; other site 224308004528 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 224308004529 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 224308004530 active site 224308004531 phosphorylation site [posttranslational modification] 224308004532 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 224308004533 active site 224308004534 P-loop; other site 224308004535 phosphorylation site [posttranslational modification] 224308004536 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 224308004537 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 224308004538 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 224308004539 Catalytic site [active] 224308004540 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 224308004541 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224308004542 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224308004543 ABC transporter; Region: ABC_tran_2; pfam12848 224308004544 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224308004545 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 224308004546 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 224308004547 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 224308004548 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 224308004549 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 224308004550 rod-share determining protein MreBH; Provisional; Region: PRK13929 224308004551 MreB and similar proteins; Region: MreB_like; cd10225 224308004552 nucleotide binding site [chemical binding]; other site 224308004553 Mg binding site [ion binding]; other site 224308004554 putative protofilament interaction site [polypeptide binding]; other site 224308004555 RodZ interaction site [polypeptide binding]; other site 224308004556 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 224308004557 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 224308004558 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 224308004559 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 224308004560 putative active site [active] 224308004561 heme pocket [chemical binding]; other site 224308004562 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 224308004563 dimer interface [polypeptide binding]; other site 224308004564 phosphorylation site [posttranslational modification] 224308004565 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 224308004566 ATP binding site [chemical binding]; other site 224308004567 Mg2+ binding site [ion binding]; other site 224308004568 G-X-G motif; other site 224308004569 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 224308004570 putative active site pocket [active] 224308004571 dimerization interface [polypeptide binding]; other site 224308004572 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 224308004573 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 224308004574 putative active site pocket [active] 224308004575 dimerization interface [polypeptide binding]; other site 224308004576 putative catalytic residue [active] 224308004577 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 224308004578 TrkA-N domain; Region: TrkA_N; pfam02254 224308004579 TrkA-C domain; Region: TrkA_C; pfam02080 224308004580 adenine deaminase; Region: ade; TIGR01178 224308004581 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 224308004582 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 224308004583 active site 224308004584 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 224308004585 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 224308004586 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 224308004587 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 224308004588 hypothetical protein; Provisional; Region: PRK13667 224308004589 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 224308004590 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 224308004591 active site 224308004592 motif I; other site 224308004593 motif II; other site 224308004594 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 224308004595 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 224308004596 active site 224308004597 catalytic residues [active] 224308004598 metal binding site [ion binding]; metal-binding site 224308004599 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 224308004600 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 224308004601 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 224308004602 TPP-binding site [chemical binding]; other site 224308004603 tetramer interface [polypeptide binding]; other site 224308004604 heterodimer interface [polypeptide binding]; other site 224308004605 phosphorylation loop region [posttranslational modification] 224308004606 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 224308004607 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 224308004608 alpha subunit interface [polypeptide binding]; other site 224308004609 TPP binding site [chemical binding]; other site 224308004610 heterodimer interface [polypeptide binding]; other site 224308004611 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 224308004612 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 224308004613 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 224308004614 E3 interaction surface; other site 224308004615 lipoyl attachment site [posttranslational modification]; other site 224308004616 e3 binding domain; Region: E3_binding; pfam02817 224308004617 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 224308004618 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 224308004619 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 224308004620 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224308004621 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 224308004622 Domain of unknown function (DUF4182); Region: DUF4182; pfam13790 224308004623 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 224308004624 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 224308004625 homodimer interface [polypeptide binding]; other site 224308004626 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308004627 catalytic residue [active] 224308004628 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 224308004629 Uncharacterized protein family (UPF0223); Region: UPF0223; pfam05256 224308004630 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 224308004631 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 224308004632 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 224308004633 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 224308004634 active site 224308004635 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 224308004636 Coenzyme A binding pocket [chemical binding]; other site 224308004637 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 224308004638 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 224308004639 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 224308004640 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 224308004641 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 224308004642 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 224308004643 active site 224308004644 Zn binding site [ion binding]; other site 224308004645 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308004646 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 224308004647 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 224308004648 DNA binding residues [nucleotide binding] 224308004649 Predicted integral membrane protein [Function unknown]; Region: COG5660 224308004650 Putative zinc-finger; Region: zf-HC2; pfam13490 224308004651 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 224308004652 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 224308004653 G1 box; other site 224308004654 putative GEF interaction site [polypeptide binding]; other site 224308004655 GTP/Mg2+ binding site [chemical binding]; other site 224308004656 Switch I region; other site 224308004657 G2 box; other site 224308004658 G3 box; other site 224308004659 Switch II region; other site 224308004660 G4 box; other site 224308004661 G5 box; other site 224308004662 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 224308004663 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 224308004664 YlaH-like protein; Region: YlaH; pfam14036 224308004665 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4896 224308004666 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 224308004667 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 224308004668 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 224308004669 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 224308004670 putative active site [active] 224308004671 PhoH-like protein; Region: PhoH; pfam02562 224308004672 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 224308004673 glutaminase A; Region: Gln_ase; TIGR03814 224308004674 hypothetical protein; Provisional; Region: PRK13666 224308004675 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 224308004676 pyruvate carboxylase; Reviewed; Region: PRK12999 224308004677 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 224308004678 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 224308004679 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 224308004680 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 224308004681 active site 224308004682 catalytic residues [active] 224308004683 metal binding site [ion binding]; metal-binding site 224308004684 homodimer binding site [polypeptide binding]; other site 224308004685 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 224308004686 carboxyltransferase (CT) interaction site; other site 224308004687 biotinylation site [posttranslational modification]; other site 224308004688 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 224308004689 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 224308004690 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 224308004691 UbiA prenyltransferase family; Region: UbiA; pfam01040 224308004692 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 224308004693 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 224308004694 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 224308004695 Cytochrome c; Region: Cytochrom_C; pfam00034 224308004696 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 224308004697 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 224308004698 D-pathway; other site 224308004699 Putative ubiquinol binding site [chemical binding]; other site 224308004700 Low-spin heme (heme b) binding site [chemical binding]; other site 224308004701 Putative water exit pathway; other site 224308004702 Binuclear center (heme o3/CuB) [ion binding]; other site 224308004703 K-pathway; other site 224308004704 Putative proton exit pathway; other site 224308004705 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 224308004706 Subunit I/III interface [polypeptide binding]; other site 224308004707 Subunit III/IV interface [polypeptide binding]; other site 224308004708 cytochrome c oxidase, subunit IVB; Region: CoxD_Bacillus; TIGR02908 224308004709 cytochrome c oxidase assembly factor CtaG; Region: caa3_CtaG; TIGR02737 224308004710 YugN-like family; Region: YugN; pfam08868 224308004711 FOG: CBS domain [General function prediction only]; Region: COG0517 224308004712 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 224308004713 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 224308004714 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 224308004715 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 224308004716 Putative coat protein; Region: YlbD_coat; pfam14071 224308004717 YlbE-like protein; Region: YlbE; pfam14003 224308004718 Regulatory protein involved in competence development and sporulation [Replication, recombination and repair; Signal transduction mechanisms]; Region: COG3679 224308004719 hypothetical protein; Provisional; Region: PRK02886 224308004720 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 224308004721 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 224308004722 S-adenosylmethionine binding site [chemical binding]; other site 224308004723 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 224308004724 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 224308004725 active site 224308004726 (T/H)XGH motif; other site 224308004727 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 224308004728 Nucleoside recognition; Region: Gate; pfam07670 224308004729 Nucleoside recognition; Region: Gate; pfam07670 224308004730 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 224308004731 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 224308004732 nucleophile elbow; other site 224308004733 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 224308004734 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 224308004735 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 224308004736 protein binding site [polypeptide binding]; other site 224308004737 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 224308004738 hypothetical protein; Provisional; Region: PRK13670 224308004739 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 224308004740 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 224308004741 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 224308004742 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 224308004743 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 224308004744 hypothetical protein; Provisional; Region: PRK13688 224308004745 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308004746 Coenzyme A binding pocket [chemical binding]; other site 224308004747 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 224308004748 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 224308004749 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 224308004750 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 224308004751 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 224308004752 mraZ protein; Region: TIGR00242 224308004753 MraZ protein; Region: MraZ; pfam02381 224308004754 MraZ protein; Region: MraZ; pfam02381 224308004755 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 224308004756 MraW methylase family; Region: Methyltransf_5; pfam01795 224308004757 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 224308004758 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 224308004759 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 224308004760 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 224308004761 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 224308004762 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 224308004763 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 224308004764 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 224308004765 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 224308004766 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 224308004767 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 224308004768 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 224308004769 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 224308004770 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 224308004771 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 224308004772 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 224308004773 Mg++ binding site [ion binding]; other site 224308004774 putative catalytic motif [active] 224308004775 putative substrate binding site [chemical binding]; other site 224308004776 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 224308004777 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 224308004778 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 224308004779 stage V sporulation protein E; Region: spoVE; TIGR02615 224308004780 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 224308004781 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 224308004782 active site 224308004783 homodimer interface [polypeptide binding]; other site 224308004784 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 224308004785 FAD binding domain; Region: FAD_binding_4; pfam01565 224308004786 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 224308004787 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 224308004788 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 224308004789 Cell division protein FtsQ; Region: FtsQ; pfam03799 224308004790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 224308004791 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 224308004792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 224308004793 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 224308004794 Uncharacterized conserved protein (small basic protein) [Function unknown]; Region: Sbp; COG3856 224308004795 cell division protein FtsA; Region: ftsA; TIGR01174 224308004796 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 224308004797 nucleotide binding site [chemical binding]; other site 224308004798 Cell division protein FtsA; Region: FtsA; pfam14450 224308004799 cell division protein FtsZ; Validated; Region: PRK09330 224308004800 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 224308004801 nucleotide binding site [chemical binding]; other site 224308004802 SulA interaction site; other site 224308004803 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 224308004804 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 224308004805 Peptidase S8 family domain in BacillopeptidaseF-like proteins; Region: Peptidases_S8_BacillopeptidaseF-like; cd07481 224308004806 active site 224308004807 catalytic triad [active] 224308004808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 224308004809 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 224308004810 Cna protein B-type domain; Region: Cna_B_2; pfam13715 224308004811 Cna protein B-type domain; Region: Cna_B_2; pfam13715 224308004812 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 224308004813 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 224308004814 sporulation sigma factor SigE; Reviewed; Region: PRK08301 224308004815 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308004816 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 224308004817 DNA binding residues [nucleotide binding] 224308004818 sporulation sigma factor SigG; Reviewed; Region: PRK08215 224308004819 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308004820 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 224308004821 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 224308004822 DNA binding residues [nucleotide binding] 224308004823 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 224308004824 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 224308004825 Walker A/P-loop; other site 224308004826 ATP binding site [chemical binding]; other site 224308004827 Q-loop/lid; other site 224308004828 ABC transporter signature motif; other site 224308004829 Walker B; other site 224308004830 D-loop; other site 224308004831 H-loop/switch region; other site 224308004832 acetylornithine deacetylase; Validated; Region: PRK08596 224308004833 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 224308004834 metal binding site [ion binding]; metal-binding site 224308004835 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 224308004836 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 224308004837 uncharacterized protein, YfiH family; Region: TIGR00726 224308004838 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 224308004839 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 224308004840 catalytic residue [active] 224308004841 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 224308004842 YGGT family; Region: YGGT; pfam02325 224308004843 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 224308004844 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 224308004845 RNA binding surface [nucleotide binding]; other site 224308004846 DivIVA protein; Region: DivIVA; pfam05103 224308004847 DivIVA domain; Region: DivI1A_domain; TIGR03544 224308004848 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 224308004849 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 224308004850 HIGH motif; other site 224308004851 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 224308004852 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 224308004853 active site 224308004854 KMSKS motif; other site 224308004855 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 224308004856 tRNA binding surface [nucleotide binding]; other site 224308004857 anticodon binding site; other site 224308004858 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 224308004859 lipoprotein signal peptidase; Region: lspA; TIGR00077 224308004860 lipoprotein signal peptidase; Provisional; Region: PRK14787 224308004861 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 224308004862 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 224308004863 RNA binding surface [nucleotide binding]; other site 224308004864 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 224308004865 active site 224308004866 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 224308004867 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224308004868 active site 224308004869 uracil-xanthine permease; Region: ncs2; TIGR00801 224308004870 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 224308004871 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 224308004872 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 224308004873 dihydroorotase; Validated; Region: pyrC; PRK09357 224308004874 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 224308004875 active site 224308004876 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 224308004877 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 224308004878 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 224308004879 catalytic site [active] 224308004880 subunit interface [polypeptide binding]; other site 224308004881 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 224308004882 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 224308004883 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 224308004884 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 224308004885 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 224308004886 ATP-grasp domain; Region: ATP-grasp_4; cl17255 224308004887 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 224308004888 IMP binding site; other site 224308004889 dimer interface [polypeptide binding]; other site 224308004890 interdomain contacts; other site 224308004891 partial ornithine binding site; other site 224308004892 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 224308004893 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 224308004894 FAD binding pocket [chemical binding]; other site 224308004895 FAD binding motif [chemical binding]; other site 224308004896 phosphate binding motif [ion binding]; other site 224308004897 beta-alpha-beta structure motif; other site 224308004898 NAD binding pocket [chemical binding]; other site 224308004899 Iron coordination center [ion binding]; other site 224308004900 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 224308004901 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 224308004902 heterodimer interface [polypeptide binding]; other site 224308004903 active site 224308004904 FMN binding site [chemical binding]; other site 224308004905 homodimer interface [polypeptide binding]; other site 224308004906 substrate binding site [chemical binding]; other site 224308004907 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 224308004908 active site 224308004909 dimer interface [polypeptide binding]; other site 224308004910 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224308004911 active site 224308004912 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 224308004913 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 224308004914 Active Sites [active] 224308004915 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 224308004916 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 224308004917 ATP-sulfurylase; Region: ATPS; cd00517 224308004918 active site 224308004919 HXXH motif; other site 224308004920 flexible loop; other site 224308004921 AAA domain; Region: AAA_33; pfam13671 224308004922 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 224308004923 ligand-binding site [chemical binding]; other site 224308004924 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 224308004925 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 224308004926 active site 224308004927 SAM binding site [chemical binding]; other site 224308004928 homodimer interface [polypeptide binding]; other site 224308004929 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 224308004930 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 224308004931 putative active site [active] 224308004932 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 224308004933 putative active site [active] 224308004934 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 224308004935 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 224308004936 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 224308004937 Domain of unknown function (DUF814); Region: DUF814; pfam05670 224308004938 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 224308004939 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 224308004940 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 224308004941 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 224308004942 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 224308004943 motif II; other site 224308004944 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 224308004945 TIGR00255 family protein; Region: TIGR00255 224308004946 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 224308004947 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 224308004948 hypothetical protein; Provisional; Region: PRK04323 224308004949 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 224308004950 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 224308004951 catalytic site [active] 224308004952 G-X2-G-X-G-K; other site 224308004953 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 224308004954 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 224308004955 Flavoprotein; Region: Flavoprotein; pfam02441 224308004956 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 224308004957 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 224308004958 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 224308004959 ATP binding site [chemical binding]; other site 224308004960 putative Mg++ binding site [ion binding]; other site 224308004961 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 224308004962 nucleotide binding region [chemical binding]; other site 224308004963 ATP-binding site [chemical binding]; other site 224308004964 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 224308004965 active site 224308004966 catalytic residues [active] 224308004967 metal binding site [ion binding]; metal-binding site 224308004968 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 224308004969 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 224308004970 putative active site [active] 224308004971 substrate binding site [chemical binding]; other site 224308004972 putative cosubstrate binding site; other site 224308004973 catalytic site [active] 224308004974 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 224308004975 substrate binding site [chemical binding]; other site 224308004976 16S rRNA methyltransferase B; Provisional; Region: PRK14902 224308004977 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 224308004978 putative RNA binding site [nucleotide binding]; other site 224308004979 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 224308004980 S-adenosylmethionine binding site [chemical binding]; other site 224308004981 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 224308004982 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 224308004983 FeS/SAM binding site; other site 224308004984 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 224308004985 Protein phosphatase 2C; Region: PP2C; pfam00481 224308004986 active site 224308004987 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 224308004988 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 224308004989 active site 224308004990 ATP binding site [chemical binding]; other site 224308004991 substrate binding site [chemical binding]; other site 224308004992 activation loop (A-loop); other site 224308004993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 224308004994 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 224308004995 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 224308004996 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 224308004997 GTPase RsgA; Reviewed; Region: PRK00098 224308004998 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 224308004999 RNA binding site [nucleotide binding]; other site 224308005000 homodimer interface [polypeptide binding]; other site 224308005001 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 224308005002 GTPase/Zn-binding domain interface [polypeptide binding]; other site 224308005003 GTP/Mg2+ binding site [chemical binding]; other site 224308005004 G4 box; other site 224308005005 G5 box; other site 224308005006 G1 box; other site 224308005007 Switch I region; other site 224308005008 G2 box; other site 224308005009 G3 box; other site 224308005010 Switch II region; other site 224308005011 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 224308005012 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 224308005013 substrate binding site [chemical binding]; other site 224308005014 hexamer interface [polypeptide binding]; other site 224308005015 metal binding site [ion binding]; metal-binding site 224308005016 Thiamine pyrophosphokinase; Region: TPK; cd07995 224308005017 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 224308005018 active site 224308005019 dimerization interface [polypeptide binding]; other site 224308005020 thiamine binding site [chemical binding]; other site 224308005021 stage V sporulation protein M; Provisional; Region: spoVM; PRK14741 224308005022 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 224308005023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 224308005024 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 224308005025 DAK2 domain; Region: Dak2; pfam02734 224308005026 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 224308005027 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 224308005028 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 224308005029 putative L-serine binding site [chemical binding]; other site 224308005030 L-serine dehydratase, iron-sulfur-dependent, alpha subunit; Region: sda_alpha; TIGR00718 224308005031 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 224308005032 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 224308005033 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 224308005034 generic binding surface II; other site 224308005035 ssDNA binding site; other site 224308005036 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 224308005037 ATP binding site [chemical binding]; other site 224308005038 putative Mg++ binding site [ion binding]; other site 224308005039 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 224308005040 nucleotide binding region [chemical binding]; other site 224308005041 ATP-binding site [chemical binding]; other site 224308005042 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 224308005043 HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PaaI; COG2050 224308005044 putative phosphate acyltransferase; Provisional; Region: PRK05331 224308005045 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 224308005046 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 224308005047 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 224308005048 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 224308005049 NAD(P) binding site [chemical binding]; other site 224308005050 homotetramer interface [polypeptide binding]; other site 224308005051 homodimer interface [polypeptide binding]; other site 224308005052 active site 224308005053 acyl carrier protein; Provisional; Region: acpP; PRK00982 224308005054 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 224308005055 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 224308005056 dimerization interface [polypeptide binding]; other site 224308005057 active site 224308005058 metal binding site [ion binding]; metal-binding site 224308005059 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 224308005060 dsRNA binding site [nucleotide binding]; other site 224308005061 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 224308005062 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 224308005063 Walker A/P-loop; other site 224308005064 ATP binding site [chemical binding]; other site 224308005065 Q-loop/lid; other site 224308005066 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 224308005067 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 224308005068 ABC transporter signature motif; other site 224308005069 Walker B; other site 224308005070 D-loop; other site 224308005071 H-loop/switch region; other site 224308005072 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 224308005073 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 224308005074 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 224308005075 GTP binding site [chemical binding]; other site 224308005076 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 224308005077 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 224308005078 putative DNA-binding protein; Validated; Region: PRK00118 224308005079 signal recognition particle protein; Provisional; Region: PRK10867 224308005080 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 224308005081 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 224308005082 P loop; other site 224308005083 GTP binding site [chemical binding]; other site 224308005084 Signal peptide binding domain; Region: SRP_SPB; pfam02978 224308005085 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 224308005086 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 224308005087 KH domain; Region: KH_4; pfam13083 224308005088 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 224308005089 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 224308005090 RimM N-terminal domain; Region: RimM; pfam01782 224308005091 PRC-barrel domain; Region: PRC; pfam05239 224308005092 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 224308005093 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 224308005094 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 224308005095 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 224308005096 GTP/Mg2+ binding site [chemical binding]; other site 224308005097 G4 box; other site 224308005098 G5 box; other site 224308005099 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 224308005100 G1 box; other site 224308005101 G1 box; other site 224308005102 GTP/Mg2+ binding site [chemical binding]; other site 224308005103 Switch I region; other site 224308005104 G2 box; other site 224308005105 G2 box; other site 224308005106 G3 box; other site 224308005107 G3 box; other site 224308005108 Switch II region; other site 224308005109 Switch II region; other site 224308005110 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 224308005111 RNA/DNA hybrid binding site [nucleotide binding]; other site 224308005112 active site 224308005113 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 224308005114 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 224308005115 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 224308005116 CoA-ligase; Region: Ligase_CoA; pfam00549 224308005117 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 224308005118 CoA binding domain; Region: CoA_binding; smart00881 224308005119 CoA-ligase; Region: Ligase_CoA; pfam00549 224308005120 DNA protecting protein DprA; Region: dprA; TIGR00732 224308005121 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 224308005122 DNA topoisomerase I; Validated; Region: PRK05582 224308005123 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 224308005124 active site 224308005125 interdomain interaction site; other site 224308005126 putative metal-binding site [ion binding]; other site 224308005127 nucleotide binding site [chemical binding]; other site 224308005128 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 224308005129 domain I; other site 224308005130 DNA binding groove [nucleotide binding] 224308005131 phosphate binding site [ion binding]; other site 224308005132 domain II; other site 224308005133 domain III; other site 224308005134 nucleotide binding site [chemical binding]; other site 224308005135 catalytic site [active] 224308005136 domain IV; other site 224308005137 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 224308005138 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 224308005139 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 224308005140 Glucose inhibited division protein A; Region: GIDA; pfam01134 224308005141 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 224308005142 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 224308005143 active site 224308005144 Int/Topo IB signature motif; other site 224308005145 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 224308005146 active site 224308005147 HslU subunit interaction site [polypeptide binding]; other site 224308005148 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 224308005149 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 224308005150 Walker A motif; other site 224308005151 ATP binding site [chemical binding]; other site 224308005152 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 224308005153 Walker B motif; other site 224308005154 arginine finger; other site 224308005155 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 224308005156 transcriptional repressor CodY; Validated; Region: PRK04158 224308005157 CodY GAF-like domain; Region: CodY; pfam06018 224308005158 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 224308005159 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 224308005160 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 224308005161 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 224308005162 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 224308005163 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 224308005164 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 224308005165 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 224308005166 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 224308005167 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 224308005168 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 224308005169 flagellar motor switch protein FliG; Region: fliG; TIGR00207 224308005170 MgtE intracellular N domain; Region: MgtE_N; smart00924 224308005171 FliG C-terminal domain; Region: FliG_C; pfam01706 224308005172 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 224308005173 Flagellar assembly protein FliH; Region: FliH; pfam02108 224308005174 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07721 224308005175 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 224308005176 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 224308005177 Walker A motif/ATP binding site; other site 224308005178 Walker B motif; other site 224308005179 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 224308005180 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 224308005181 Uncharacterized conserved protein [Function unknown]; Region: COG3334 224308005182 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 224308005183 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 224308005184 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 224308005185 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 224308005186 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 224308005187 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 224308005188 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 224308005189 Uncharacterized protein, possibly involved in motility [Cell motility and secretion]; Region: FlgEa; COG1582 224308005190 Flagellar basal body-associated protein [Cell motility and secretion]; Region: FliL; COG1580 224308005191 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 224308005192 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 224308005193 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 224308005194 flagellar motor switch protein; Validated; Region: PRK08119 224308005195 CheC-like family; Region: CheC; pfam04509 224308005196 CheC-like family; Region: CheC; pfam04509 224308005197 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 224308005198 Response regulator receiver domain; Region: Response_reg; pfam00072 224308005199 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 224308005200 active site 224308005201 phosphorylation site [posttranslational modification] 224308005202 intermolecular recognition site; other site 224308005203 dimerization interface [polypeptide binding]; other site 224308005204 flagella biosynthesis protein FliZ; Provisional; Region: PRK13415 224308005205 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 224308005206 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 224308005207 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 224308005208 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 224308005209 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 224308005210 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 224308005211 FHIPEP family; Region: FHIPEP; pfam00771 224308005212 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 224308005213 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 224308005214 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 224308005215 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 224308005216 P-loop; other site 224308005217 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 224308005218 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 224308005219 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 224308005220 active site 224308005221 phosphorylation site [posttranslational modification] 224308005222 intermolecular recognition site; other site 224308005223 dimerization interface [polypeptide binding]; other site 224308005224 CheB methylesterase; Region: CheB_methylest; pfam01339 224308005225 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 224308005226 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 224308005227 putative binding surface; other site 224308005228 active site 224308005229 P2 response regulator binding domain; Region: P2; pfam07194 224308005230 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 224308005231 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 224308005232 ATP binding site [chemical binding]; other site 224308005233 Mg2+ binding site [ion binding]; other site 224308005234 G-X-G motif; other site 224308005235 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 224308005236 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 224308005237 putative CheA interaction surface; other site 224308005238 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 224308005239 CheC-like family; Region: CheC; pfam04509 224308005240 CheC-like family; Region: CheC; pfam04509 224308005241 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 224308005242 RNA polymerase sigma factor SigD; Validated; Region: PRK07670 224308005243 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308005244 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 224308005245 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 224308005246 DNA binding residues [nucleotide binding] 224308005247 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 224308005248 rRNA interaction site [nucleotide binding]; other site 224308005249 S8 interaction site; other site 224308005250 putative laminin-1 binding site; other site 224308005251 elongation factor Ts; Provisional; Region: tsf; PRK09377 224308005252 UBA/TS-N domain; Region: UBA; pfam00627 224308005253 Elongation factor TS; Region: EF_TS; pfam00889 224308005254 Elongation factor TS; Region: EF_TS; pfam00889 224308005255 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 224308005256 putative nucleotide binding site [chemical binding]; other site 224308005257 uridine monophosphate binding site [chemical binding]; other site 224308005258 homohexameric interface [polypeptide binding]; other site 224308005259 ribosome recycling factor; Reviewed; Region: frr; PRK00083 224308005260 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 224308005261 hinge region; other site 224308005262 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 224308005263 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 224308005264 catalytic residue [active] 224308005265 putative FPP diphosphate binding site; other site 224308005266 putative FPP binding hydrophobic cleft; other site 224308005267 dimer interface [polypeptide binding]; other site 224308005268 putative IPP diphosphate binding site; other site 224308005269 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 224308005270 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 224308005271 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 224308005272 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 224308005273 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 224308005274 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 224308005275 RIP metalloprotease RseP; Region: TIGR00054 224308005276 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 224308005277 active site 224308005278 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 224308005279 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 224308005280 protein binding site [polypeptide binding]; other site 224308005281 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 224308005282 putative substrate binding region [chemical binding]; other site 224308005283 prolyl-tRNA synthetase; Provisional; Region: PRK09194 224308005284 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 224308005285 dimer interface [polypeptide binding]; other site 224308005286 motif 1; other site 224308005287 active site 224308005288 motif 2; other site 224308005289 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 224308005290 putative deacylase active site [active] 224308005291 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 224308005292 active site 224308005293 motif 3; other site 224308005294 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 224308005295 anticodon binding site; other site 224308005296 DNA polymerase III PolC; Validated; Region: polC; PRK00448 224308005297 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 224308005298 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 224308005299 generic binding surface II; other site 224308005300 generic binding surface I; other site 224308005301 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 224308005302 active site 224308005303 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 224308005304 active site 224308005305 catalytic site [active] 224308005306 substrate binding site [chemical binding]; other site 224308005307 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 224308005308 ribosome maturation protein RimP; Reviewed; Region: PRK00092 224308005309 Sm and related proteins; Region: Sm_like; cl00259 224308005310 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 224308005311 putative oligomer interface [polypeptide binding]; other site 224308005312 putative RNA binding site [nucleotide binding]; other site 224308005313 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 224308005314 NusA N-terminal domain; Region: NusA_N; pfam08529 224308005315 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 224308005316 RNA binding site [nucleotide binding]; other site 224308005317 homodimer interface [polypeptide binding]; other site 224308005318 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 224308005319 G-X-X-G motif; other site 224308005320 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 224308005321 G-X-X-G motif; other site 224308005322 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 224308005323 putative RNA binding cleft [nucleotide binding]; other site 224308005324 hypothetical protein; Provisional; Region: PRK07714 224308005325 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 224308005326 translation initiation factor IF-2; Region: IF-2; TIGR00487 224308005327 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 224308005328 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 224308005329 G1 box; other site 224308005330 putative GEF interaction site [polypeptide binding]; other site 224308005331 GTP/Mg2+ binding site [chemical binding]; other site 224308005332 Switch I region; other site 224308005333 G2 box; other site 224308005334 G3 box; other site 224308005335 Switch II region; other site 224308005336 G4 box; other site 224308005337 G5 box; other site 224308005338 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 224308005339 Translation-initiation factor 2; Region: IF-2; pfam11987 224308005340 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 224308005341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1550 224308005342 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 224308005343 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 224308005344 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 224308005345 RNA binding site [nucleotide binding]; other site 224308005346 active site 224308005347 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 224308005348 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 224308005349 active site 224308005350 Riboflavin kinase; Region: Flavokinase; smart00904 224308005351 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 224308005352 16S/18S rRNA binding site [nucleotide binding]; other site 224308005353 S13e-L30e interaction site [polypeptide binding]; other site 224308005354 25S rRNA binding site [nucleotide binding]; other site 224308005355 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 224308005356 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 224308005357 RNase E interface [polypeptide binding]; other site 224308005358 trimer interface [polypeptide binding]; other site 224308005359 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 224308005360 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 224308005361 RNase E interface [polypeptide binding]; other site 224308005362 trimer interface [polypeptide binding]; other site 224308005363 active site 224308005364 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 224308005365 putative nucleic acid binding region [nucleotide binding]; other site 224308005366 G-X-X-G motif; other site 224308005367 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 224308005368 RNA binding site [nucleotide binding]; other site 224308005369 domain interface; other site 224308005370 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 224308005371 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 224308005372 NodB motif; other site 224308005373 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 224308005374 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 224308005375 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 224308005376 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 224308005377 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 224308005378 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 224308005379 Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]; Region: Dfp; COG0452 224308005380 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 224308005381 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 224308005382 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 224308005383 aspartate kinase I; Reviewed; Region: PRK08210 224308005384 AAK_AKi-DapG-BS: Amino Acid Kinase Superfamily (AAK), AKi-DapG; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional class enzyme found in Bacilli; Region: AAK_AKi-DapG-BS; cd04260 224308005385 putative catalytic residues [active] 224308005386 putative nucleotide binding site [chemical binding]; other site 224308005387 putative aspartate binding site [chemical binding]; other site 224308005388 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 224308005389 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 224308005390 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 224308005391 dihydrodipicolinate synthase; Region: dapA; TIGR00674 224308005392 dimer interface [polypeptide binding]; other site 224308005393 active site 224308005394 catalytic residue [active] 224308005395 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 224308005396 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 224308005397 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 224308005398 Clp protease; Region: CLP_protease; pfam00574 224308005399 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 224308005400 active site 224308005401 YlzJ-like protein; Region: YlzJ; pfam14035 224308005402 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 224308005403 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 224308005404 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 224308005405 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 224308005406 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 224308005407 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308005408 DNA-binding site [nucleotide binding]; DNA binding site 224308005409 UTRA domain; Region: UTRA; pfam07702 224308005410 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 224308005411 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308005412 putative substrate translocation pore; other site 224308005413 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 224308005414 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 224308005415 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 224308005416 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 224308005417 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 224308005418 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 224308005419 classical (c) SDRs; Region: SDR_c; cd05233 224308005420 NAD(P) binding site [chemical binding]; other site 224308005421 active site 224308005422 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 224308005423 Evidence 4: Homologs of previously reported genes of unknown function 224308005424 Evidence 4: Homologs of previously reported genes of unknown function 224308005425 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 224308005426 Helix-turn-helix domain; Region: HTH_25; pfam13413 224308005427 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 224308005428 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 224308005429 competence damage-inducible protein A; Provisional; Region: PRK00549 224308005430 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 224308005431 putative MPT binding site; other site 224308005432 competence/damage-inducible protein CinA C-terminal domain; Region: cinA_cterm; TIGR00199 224308005433 recombinase A; Provisional; Region: recA; PRK09354 224308005434 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 224308005435 hexamer interface [polypeptide binding]; other site 224308005436 Walker A motif; other site 224308005437 ATP binding site [chemical binding]; other site 224308005438 Walker B motif; other site 224308005439 Beta-lactamase; Region: Beta-lactamase; pfam00144 224308005440 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 224308005441 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 224308005442 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 224308005443 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 224308005444 Zn2+ binding site [ion binding]; other site 224308005445 Mg2+ binding site [ion binding]; other site 224308005446 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 224308005447 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 224308005448 putative active site [active] 224308005449 metal binding site [ion binding]; metal-binding site 224308005450 homodimer binding site [polypeptide binding]; other site 224308005451 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 224308005452 Threonine dehydrogenase; Region: TDH; cd05281 224308005453 L-threonine 3-dehydrogenase; Region: tdh; TIGR00692 224308005454 structural Zn binding site [ion binding]; other site 224308005455 catalytic Zn binding site [ion binding]; other site 224308005456 tetramer interface [polypeptide binding]; other site 224308005457 NADP binding site [chemical binding]; other site 224308005458 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 224308005459 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 224308005460 substrate-cofactor binding pocket; other site 224308005461 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308005462 catalytic residue [active] 224308005463 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 224308005464 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 224308005465 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 224308005466 FeS/SAM binding site; other site 224308005467 TRAM domain; Region: TRAM; pfam01938 224308005468 Predicted membrane protein [Function unknown]; Region: COG4550 224308005469 Outer spore coat protein E (CotE); Region: CotE; pfam10628 224308005470 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 224308005471 MutS domain I; Region: MutS_I; pfam01624 224308005472 MutS domain II; Region: MutS_II; pfam05188 224308005473 MutS domain III; Region: MutS_III; pfam05192 224308005474 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 224308005475 Walker A/P-loop; other site 224308005476 ATP binding site [chemical binding]; other site 224308005477 Q-loop/lid; other site 224308005478 ABC transporter signature motif; other site 224308005479 Walker B; other site 224308005480 D-loop; other site 224308005481 H-loop/switch region; other site 224308005482 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 224308005483 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 224308005484 ATP binding site [chemical binding]; other site 224308005485 Mg2+ binding site [ion binding]; other site 224308005486 G-X-G motif; other site 224308005487 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 224308005488 ATP binding site [chemical binding]; other site 224308005489 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 224308005490 Regulatory protein YrvL; Region: YrvL; pfam14184 224308005491 transcriptional regulator BetI; Validated; Region: PRK00767 224308005492 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308005493 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 224308005494 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 224308005495 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 224308005496 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 224308005497 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 224308005498 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 224308005499 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 224308005500 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 224308005501 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 224308005502 FMN binding site [chemical binding]; other site 224308005503 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 224308005504 substrate binding site [chemical binding]; other site 224308005505 putative catalytic residue [active] 224308005506 acyl carrier protein; Validated; Region: PRK07117 224308005507 polyketide beta-ketoacyl:acyl carrier protein synthase; Validated; Region: PRK07103 224308005508 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 224308005509 dimer interface [polypeptide binding]; other site 224308005510 active site 224308005511 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 224308005512 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 224308005513 dimer interface [polypeptide binding]; other site 224308005514 active site 224308005515 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 224308005516 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 224308005517 substrate binding site [chemical binding]; other site 224308005518 oxyanion hole (OAH) forming residues; other site 224308005519 trimer interface [polypeptide binding]; other site 224308005520 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 224308005521 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 224308005522 substrate binding site [chemical binding]; other site 224308005523 oxyanion hole (OAH) forming residues; other site 224308005524 trimer interface [polypeptide binding]; other site 224308005525 The adenylation domain (A domain) of a family of nonribosomal peptide synthetases (NRPSs) synthesizing toxins and antitumor agents; Region: A_NRPS_TubE_like; cd05906 224308005526 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 224308005527 acyl-activating enzyme (AAE) consensus motif; other site 224308005528 putative AMP binding site [chemical binding]; other site 224308005529 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005530 Condensation domain; Region: Condensation; pfam00668 224308005531 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308005532 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 224308005533 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 224308005534 acyl-activating enzyme (AAE) consensus motif; other site 224308005535 AMP binding site [chemical binding]; other site 224308005536 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005537 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 224308005538 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005539 active site 224308005540 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 224308005541 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 224308005542 KR domain; Region: KR; pfam08659 224308005543 putative NADP binding site [chemical binding]; other site 224308005544 active site 224308005545 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005546 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005547 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 224308005548 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005549 active site 224308005550 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 224308005551 putative NADP binding site [chemical binding]; other site 224308005552 active site 224308005553 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005554 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005555 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 224308005556 active site 224308005557 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 224308005558 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005559 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 224308005560 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005561 active site 224308005562 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 224308005563 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 224308005564 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 224308005565 putative NADP binding site [chemical binding]; other site 224308005566 active site 224308005567 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005568 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005569 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 224308005570 active site 224308005571 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 224308005572 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 224308005573 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 224308005574 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005575 active site 224308005576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224308005577 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 224308005578 putative NADP binding site [chemical binding]; other site 224308005579 active site 224308005580 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005581 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005582 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 224308005583 active site 224308005584 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 224308005585 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 224308005586 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 224308005587 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005588 active site 224308005589 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 224308005590 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 224308005591 putative NADP binding site [chemical binding]; other site 224308005592 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 224308005593 active site 224308005594 Methyltransferase domain; Region: Methyltransf_12; pfam08242 224308005595 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005596 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 224308005597 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005598 active site 224308005599 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224308005600 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 224308005601 putative NADP binding site [chemical binding]; other site 224308005602 active site 224308005603 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005604 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005605 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 224308005606 active site 224308005607 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005608 Condensation domain; Region: Condensation; pfam00668 224308005609 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308005610 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 224308005611 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 224308005612 acyl-activating enzyme (AAE) consensus motif; other site 224308005613 AMP binding site [chemical binding]; other site 224308005614 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005615 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 224308005616 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005617 active site 224308005618 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 224308005619 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 224308005620 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 224308005621 putative NADP binding site [chemical binding]; other site 224308005622 active site 224308005623 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 224308005624 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 224308005625 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005626 active site 224308005627 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 224308005628 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 224308005629 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 224308005630 putative NADP binding site [chemical binding]; other site 224308005631 active site 224308005632 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 224308005633 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 224308005634 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005635 active site 224308005636 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 224308005637 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 224308005638 putative NADP binding site [chemical binding]; other site 224308005639 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 224308005640 active site 224308005641 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 224308005642 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 224308005643 S-adenosylmethionine binding site [chemical binding]; other site 224308005644 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 224308005645 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005646 active site 224308005647 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 224308005648 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 224308005649 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 224308005650 active site 224308005651 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 224308005652 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 224308005653 Cytochrome P450; Region: p450; cl12078 224308005654 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 224308005655 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 224308005656 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 224308005657 active site 224308005658 catalytic triad [active] 224308005659 Evidence 4: Homologs of previously reported genes of unknown function 224308005660 Evidence 4: Homologs of previously reported genes of unknown function 224308005661 Phage-related replication protein [General function prediction only]; Region: COG4195 224308005662 peroxiredoxin, SACOL1771 subfamily; Region: perox_SACOL1771; TIGR03563 224308005663 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 224308005664 Small Multidrug Resistance protein; Region: Multi_Drug_Res; pfam00893 224308005665 YmaF family; Region: YmaF; pfam12788 224308005666 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 224308005667 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 224308005668 bacterial Hfq-like; Region: Hfq; cd01716 224308005669 hexamer interface [polypeptide binding]; other site 224308005670 Sm1 motif; other site 224308005671 RNA binding site [nucleotide binding]; other site 224308005672 Sm2 motif; other site 224308005673 YmzC-like protein; Region: YmzC; pfam14157 224308005674 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 224308005675 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 224308005676 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 224308005677 Class I ribonucleotide reductase; Region: RNR_I; cd01679 224308005678 active site 224308005679 dimer interface [polypeptide binding]; other site 224308005680 catalytic residues [active] 224308005681 effector binding site; other site 224308005682 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 224308005683 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 224308005684 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 224308005685 dimer interface [polypeptide binding]; other site 224308005686 putative radical transfer pathway; other site 224308005687 diiron center [ion binding]; other site 224308005688 tyrosyl radical; other site 224308005689 Predicted phosphoesterase (MutT family) [General function prediction only]; Region: COG4112 224308005690 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 224308005691 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 224308005692 active site 224308005693 metal binding site [ion binding]; metal-binding site 224308005694 Sporulation related domain; Region: SPOR; pfam05036 224308005695 stage V sporulation protein K; Region: spore_V_K; TIGR02881 224308005696 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 224308005697 Walker A motif; other site 224308005698 ATP binding site [chemical binding]; other site 224308005699 Walker B motif; other site 224308005700 arginine finger; other site 224308005701 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 224308005702 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 224308005703 HflX GTPase family; Region: HflX; cd01878 224308005704 G1 box; other site 224308005705 GTP/Mg2+ binding site [chemical binding]; other site 224308005706 Switch I region; other site 224308005707 G2 box; other site 224308005708 G3 box; other site 224308005709 Switch II region; other site 224308005710 G4 box; other site 224308005711 G5 box; other site 224308005712 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 224308005713 Aluminium resistance protein; Region: Alum_res; pfam06838 224308005714 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 224308005715 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 224308005716 DNA binding residues [nucleotide binding] 224308005717 putative dimer interface [polypeptide binding]; other site 224308005718 glutamine synthetase, type I; Region: GlnA; TIGR00653 224308005719 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 224308005720 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 224308005721 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 224308005722 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 224308005723 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308005724 Coenzyme A binding pocket [chemical binding]; other site 224308005725 Domain of unknown function (DUF3885); Region: DUF3885; pfam13021 224308005726 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 224308005727 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 224308005728 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 224308005729 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 224308005730 inhibitor binding site; inhibition site 224308005731 active site 224308005732 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 224308005733 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 224308005734 nucleotide binding site [chemical binding]; other site 224308005735 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 224308005736 xylose isomerase; Provisional; Region: PRK05474 224308005737 xylose isomerase; Region: xylose_isom_A; TIGR02630 224308005738 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 224308005739 N- and C-terminal domain interface [polypeptide binding]; other site 224308005740 D-xylulose kinase; Region: XylB; TIGR01312 224308005741 active site 224308005742 MgATP binding site [chemical binding]; other site 224308005743 catalytic site [active] 224308005744 metal binding site [ion binding]; metal-binding site 224308005745 xylulose binding site [chemical binding]; other site 224308005746 homodimer interface [polypeptide binding]; other site 224308005747 Staphylococcal nuclease homologues; Region: SNc; smart00318 224308005748 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 224308005749 Catalytic site; other site 224308005750 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 224308005751 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 224308005752 putative substrate translocation pore; other site 224308005753 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 224308005754 alanine racemase; Region: alr; TIGR00492 224308005755 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 224308005756 active site 224308005757 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 224308005758 dimer interface [polypeptide binding]; other site 224308005759 substrate binding site [chemical binding]; other site 224308005760 catalytic residues [active] 224308005761 Protein of unknown function (DUF2691); Region: DUF2691; pfam10903 224308005762 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 224308005763 trimer interface [polypeptide binding]; other site 224308005764 active site 224308005765 Evidence 5: No homology to any previously reported sequences 224308005766 thymidylate synthase; Reviewed; Region: thyA; PRK01827 224308005767 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 224308005768 dimerization interface [polypeptide binding]; other site 224308005769 active site 224308005770 Uncharacterized proteins similar to Bacillus subtilis YncM; Region: YncM_like; cd13427 224308005771 putative binding site; other site 224308005772 putative dimer interface [polypeptide binding]; other site 224308005773 YoqO-like protein; Region: YoqO; pfam14037 224308005774 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 224308005775 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 224308005776 putative hydrophobic ligand binding site [chemical binding]; other site 224308005777 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 224308005778 Spore germination protein; Region: Spore_permease; pfam03845 224308005779 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 224308005780 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 224308005781 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 224308005782 YndJ-like protein; Region: YndJ; pfam14158 224308005783 Phage-related replication protein [General function prediction only]; Region: COG4195 224308005784 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 224308005785 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 224308005786 FosB, a fosfomycin resistance protein, catalyzes the Mg(II) dependent addition of L-cysteine to the epoxide ring of fosfomycin; Region: FosB; cd08363 224308005787 putative active site [active] 224308005788 putative Mg binding site [ion binding]; other site 224308005789 LexA repressor; Validated; Region: PRK00215 224308005790 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 224308005791 putative DNA binding site [nucleotide binding]; other site 224308005792 putative Zn2+ binding site [ion binding]; other site 224308005793 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 224308005794 Catalytic site [active] 224308005795 cell division suppressor protein YneA; Provisional; Region: PRK14125 224308005796 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308005797 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 224308005798 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 224308005799 catalytic residues [active] 224308005800 catalytic nucleophile [active] 224308005801 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4224 224308005802 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 224308005803 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 224308005804 TPP-binding site [chemical binding]; other site 224308005805 dimer interface [polypeptide binding]; other site 224308005806 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 224308005807 PYR/PP interface [polypeptide binding]; other site 224308005808 dimer interface [polypeptide binding]; other site 224308005809 TPP binding site [chemical binding]; other site 224308005810 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 224308005811 Protein of unknown function (DUF2522); Region: DUF2522; pfam10747 224308005812 hypothetical protein; Provisional; Region: PRK01844 224308005813 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 224308005814 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 224308005815 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 224308005816 Response regulator receiver domain; Region: Response_reg; pfam00072 224308005817 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 224308005818 active site 224308005819 phosphorylation site [posttranslational modification] 224308005820 intermolecular recognition site; other site 224308005821 dimerization interface [polypeptide binding]; other site 224308005822 Membrane protein involved in cytochrome C biogenesis [Posttranslational modification, protein turnover, chaperones]; Region: CcdC; COG4846 224308005823 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 224308005824 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 224308005825 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 224308005826 putative dimer interface [polypeptide binding]; other site 224308005827 acid-soluble spore protein P; Provisional; Region: sspP; PRK09399 224308005828 acid-soluble spore protein O; Provisional; Region: sspO; PRK02984 224308005829 aconitate hydratase; Validated; Region: PRK09277 224308005830 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 224308005831 substrate binding site [chemical binding]; other site 224308005832 ligand binding site [chemical binding]; other site 224308005833 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 224308005834 substrate binding site [chemical binding]; other site 224308005835 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 224308005836 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 224308005837 catalytic residues [active] 224308005838 Protein of unknown function (DUF3901); Region: DUF3901; pfam13040 224308005839 acid-soluble spore protein N; Provisional; Region: sspN; PRK09398 224308005840 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 224308005841 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 224308005842 active site 224308005843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4841 224308005844 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 224308005845 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 224308005846 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 224308005847 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 224308005848 ATP binding site [chemical binding]; other site 224308005849 Mg2+ binding site [ion binding]; other site 224308005850 G-X-G motif; other site 224308005851 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 224308005852 anchoring element; other site 224308005853 dimer interface [polypeptide binding]; other site 224308005854 ATP binding site [chemical binding]; other site 224308005855 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 224308005856 active site 224308005857 putative metal-binding site [ion binding]; other site 224308005858 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 224308005859 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 224308005860 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 224308005861 CAP-like domain; other site 224308005862 active site 224308005863 primary dimer interface [polypeptide binding]; other site 224308005864 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224308005865 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224308005866 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224308005867 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224308005868 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 224308005869 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 224308005870 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 224308005871 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 224308005872 Cellulose binding domain; Region: CBM_3; pfam00942 224308005873 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 224308005874 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 224308005875 Glycosyl hydrolase family 43; Region: GH43_AXH_1; cd09003 224308005876 substrate binding site [chemical binding]; other site 224308005877 active site 224308005878 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 224308005879 metal binding site [ion binding]; metal-binding site 224308005880 ligand binding site [chemical binding]; other site 224308005881 Predicted membrane protein [Function unknown]; Region: COG2246 224308005882 GtrA-like protein; Region: GtrA; pfam04138 224308005883 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 224308005884 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 224308005885 active site 224308005886 tetramer interface; other site 224308005887 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 224308005888 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 224308005889 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 224308005890 DHH family; Region: DHH; pfam01368 224308005891 DHHA1 domain; Region: DHHA1; pfam02272 224308005892 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 224308005893 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 224308005894 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 224308005895 enoyl-CoA hydratase; Provisional; Region: PRK07657 224308005896 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 224308005897 substrate binding site [chemical binding]; other site 224308005898 oxyanion hole (OAH) forming residues; other site 224308005899 trimer interface [polypeptide binding]; other site 224308005900 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 224308005901 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 224308005902 active site 224308005903 catalytic residues [active] 224308005904 metal binding site [ion binding]; metal-binding site 224308005905 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 224308005906 carboxyltransferase (CT) interaction site; other site 224308005907 biotinylation site [posttranslational modification]; other site 224308005908 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 224308005909 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 224308005910 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 224308005911 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 224308005912 AMP-binding domain protein; Validated; Region: PRK08315 224308005913 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 224308005914 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 224308005915 acyl-activating enzyme (AAE) consensus motif; other site 224308005916 putative AMP binding site [chemical binding]; other site 224308005917 putative active site [active] 224308005918 putative CoA binding site [chemical binding]; other site 224308005919 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 224308005920 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 224308005921 active site 224308005922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 224308005923 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 224308005924 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 224308005925 Condensation domain; Region: Condensation; pfam00668 224308005926 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308005927 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 224308005928 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 224308005929 acyl-activating enzyme (AAE) consensus motif; other site 224308005930 AMP binding site [chemical binding]; other site 224308005931 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005932 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 224308005933 Condensation domain; Region: Condensation; pfam00668 224308005934 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308005935 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 224308005936 acyl-activating enzyme (AAE) consensus motif; other site 224308005937 AMP binding site [chemical binding]; other site 224308005938 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005939 Condensation domain; Region: Condensation; pfam00668 224308005940 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308005941 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 224308005942 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 224308005943 acyl-activating enzyme (AAE) consensus motif; other site 224308005944 AMP binding site [chemical binding]; other site 224308005945 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005946 Condensation domain; Region: Condensation; pfam00668 224308005947 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308005948 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 224308005949 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 224308005950 acyl-activating enzyme (AAE) consensus motif; other site 224308005951 AMP binding site [chemical binding]; other site 224308005952 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005953 Condensation domain; Region: Condensation; pfam00668 224308005954 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 224308005955 Condensation domain; Region: Condensation; pfam00668 224308005956 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308005957 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 224308005958 acyl-activating enzyme (AAE) consensus motif; other site 224308005959 AMP binding site [chemical binding]; other site 224308005960 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005961 Condensation domain; Region: Condensation; pfam00668 224308005962 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308005963 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 224308005964 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 224308005965 acyl-activating enzyme (AAE) consensus motif; other site 224308005966 AMP binding site [chemical binding]; other site 224308005967 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005968 Condensation domain; Region: Condensation; pfam00668 224308005969 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 224308005970 Condensation domain; Region: Condensation; pfam00668 224308005971 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308005972 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 224308005973 acyl-activating enzyme (AAE) consensus motif; other site 224308005974 AMP binding site [chemical binding]; other site 224308005975 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005976 Condensation domain; Region: Condensation; pfam00668 224308005977 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308005978 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 224308005979 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 224308005980 acyl-activating enzyme (AAE) consensus motif; other site 224308005981 AMP binding site [chemical binding]; other site 224308005982 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005983 Condensation domain; Region: Condensation; pfam00668 224308005984 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308005985 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 224308005986 Condensation domain; Region: Condensation; pfam00668 224308005987 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308005988 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 224308005989 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 224308005990 acyl-activating enzyme (AAE) consensus motif; other site 224308005991 AMP binding site [chemical binding]; other site 224308005992 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308005993 Condensation domain; Region: Condensation; pfam00668 224308005994 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308005995 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 224308005996 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 224308005997 acyl-activating enzyme (AAE) consensus motif; other site 224308005998 AMP binding site [chemical binding]; other site 224308005999 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308006000 Condensation domain; Region: Condensation; pfam00668 224308006001 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308006002 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 224308006003 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 224308006004 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 224308006005 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 224308006006 active site 224308006007 catalytic residues [active] 224308006008 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 224308006009 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 224308006010 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 224308006011 Int/Topo IB signature motif; other site 224308006012 Helix-turn-helix domain; Region: HTH_17; cl17695 224308006013 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 224308006014 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 224308006015 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308006016 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308006017 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 224308006018 putative dimerization interface [polypeptide binding]; other site 224308006019 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 224308006020 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 224308006021 NAD(P) binding site [chemical binding]; other site 224308006022 glutamate synthases, NADH/NADPH, small subunit; Region: GOGAT_sm_gam; TIGR01317 224308006023 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 224308006024 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 224308006025 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 224308006026 active site 224308006027 dimer interface [polypeptide binding]; other site 224308006028 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 224308006029 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 224308006030 active site 224308006031 FMN binding site [chemical binding]; other site 224308006032 substrate binding site [chemical binding]; other site 224308006033 3Fe-4S cluster binding site [ion binding]; other site 224308006034 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 224308006035 domain interface; other site 224308006036 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308006037 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308006038 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 224308006039 putative dimerization interface [polypeptide binding]; other site 224308006040 gamma-glutamyl kinase; Provisional; Region: PRK13402 224308006041 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 224308006042 nucleotide binding site [chemical binding]; other site 224308006043 homotetrameric interface [polypeptide binding]; other site 224308006044 putative phosphate binding site [ion binding]; other site 224308006045 putative allosteric binding site; other site 224308006046 PUA domain; Region: PUA; pfam01472 224308006047 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 224308006048 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 224308006049 Replication terminator protein; Region: RTP; pfam02334 224308006050 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 224308006051 classical (c) SDRs; Region: SDR_c; cd05233 224308006052 NAD(P) binding site [chemical binding]; other site 224308006053 active site 224308006054 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 224308006055 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 224308006056 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 224308006057 polyol permease family; Region: 2A0118; TIGR00897 224308006058 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 224308006059 putative substrate translocation pore; other site 224308006060 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 224308006061 Autoinducer-2 kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K_like; cd07798 224308006062 putative N- and C-terminal domain interface [polypeptide binding]; other site 224308006063 putative active site [active] 224308006064 putative MgATP binding site [chemical binding]; other site 224308006065 catalytic site [active] 224308006066 metal binding site [ion binding]; metal-binding site 224308006067 carbohydrate binding site [chemical binding]; other site 224308006068 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 224308006069 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_10; cd12171 224308006070 putative ligand binding site [chemical binding]; other site 224308006071 putative NAD binding site [chemical binding]; other site 224308006072 catalytic site [active] 224308006073 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 224308006074 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 224308006075 putative [4Fe-4S] binding site [ion binding]; other site 224308006076 putative molybdopterin cofactor binding site [chemical binding]; other site 224308006077 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 224308006078 putative molybdopterin cofactor binding site; other site 224308006079 Protein of unknown function (DUF4025); Region: DUF4025; pfam13217 224308006080 CHASE3 domain; Region: CHASE3; cl05000 224308006081 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 224308006082 dimerization interface [polypeptide binding]; other site 224308006083 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 224308006084 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 224308006085 dimer interface [polypeptide binding]; other site 224308006086 putative CheW interface [polypeptide binding]; other site 224308006087 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 224308006088 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 224308006089 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 224308006090 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 224308006091 Predicted membrane protein [Function unknown]; Region: COG3619 224308006092 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 224308006093 Amb_all domain; Region: Amb_all; smart00656 224308006094 Uncharacterized conserved protein [Function unknown]; Region: COG2135 224308006095 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 224308006096 Cupin; Region: Cupin_1; smart00835 224308006097 Cupin; Region: Cupin_1; smart00835 224308006098 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 224308006099 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308006100 Coenzyme A binding pocket [chemical binding]; other site 224308006101 YoaP-like; Region: YoaP; pfam14268 224308006102 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 224308006103 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 224308006104 VanW like protein; Region: VanW; pfam04294 224308006105 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 224308006106 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 224308006107 salt bridge; other site 224308006108 non-specific DNA binding site [nucleotide binding]; other site 224308006109 sequence-specific DNA binding site [nucleotide binding]; other site 224308006110 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 224308006111 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308006112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308006113 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 224308006114 dimerization interface [polypeptide binding]; other site 224308006115 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224308006116 EamA-like transporter family; Region: EamA; pfam00892 224308006117 EamA-like transporter family; Region: EamA; pfam00892 224308006118 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 224308006119 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 224308006120 conserved cys residue [active] 224308006121 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 224308006122 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 224308006123 Protein of unknown function (DUF3221); Region: DUF3221; pfam11518 224308006124 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h: extrachromosomal origin 224308006125 phosphoenolpyruvate synthase; Validated; Region: PRK06241 224308006126 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 224308006127 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 224308006128 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 224308006129 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 224308006130 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224308006131 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 224308006132 non-specific DNA binding site [nucleotide binding]; other site 224308006133 salt bridge; other site 224308006134 sequence-specific DNA binding site [nucleotide binding]; other site 224308006135 Uncharacterized conserved protein [Function unknown]; Region: COG2135 224308006136 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 224308006137 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 224308006138 putative active site [active] 224308006139 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h: extrachromosomal origin 224308006140 Tetratricopeptide repeat; Region: TPR_12; pfam13424 224308006141 Tetratricopeptide repeat; Region: TPR_12; pfam13424 224308006142 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 224308006143 TPR motif; other site 224308006144 binding surface 224308006145 Y-family of DNA polymerases; Region: PolY; cl12025 224308006146 DNA binding site [nucleotide binding] 224308006147 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 224308006148 Y-family of DNA polymerases; Region: PolY; cl12025 224308006149 active site 224308006150 YolD-like protein; Region: YolD; pfam08863 224308006151 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h: extrachromosomal origin 224308006152 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 224308006153 Uncharacterized conserved protein [Function unknown]; Region: COG5444 224308006154 A nuclease of the HNH/ENDO VII superfamily with conserved LHH; Region: LHH; pfam14411 224308006155 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 224308006156 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 224308006157 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 224308006158 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 224308006159 Peptidase_G2, IMC autoproteolytic cleavage domain; Region: Peptidase_G2; pfam11962 224308006160 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 224308006161 dimer interface [polypeptide binding]; other site 224308006162 putative tRNA-binding site [nucleotide binding]; other site 224308006163 Cupin domain; Region: Cupin_2; pfam07883 224308006164 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308006165 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 224308006166 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308006167 Coenzyme A binding pocket [chemical binding]; other site 224308006168 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308006169 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308006170 WHG domain; Region: WHG; pfam13305 224308006171 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 224308006172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 224308006173 Predicted transcriptional regulator [Transcription]; Region: COG2378 224308006174 HTH domain; Region: HTH_11; pfam08279 224308006175 WYL domain; Region: WYL; pfam13280 224308006176 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 224308006177 dimerization interface [polypeptide binding]; other site 224308006178 putative DNA binding site [nucleotide binding]; other site 224308006179 putative Zn2+ binding site [ion binding]; other site 224308006180 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 224308006181 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 224308006182 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224308006183 catalytic residue [active] 224308006184 Predicted membrane protein [Function unknown]; Region: COG2322 224308006185 Protein required for attachment to host cells; Region: Host_attach; cl02398 224308006186 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 224308006187 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 224308006188 putative dimer interface [polypeptide binding]; other site 224308006189 catalytic triad [active] 224308006190 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 224308006191 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 224308006192 putative di-iron ligands [ion binding]; other site 224308006193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 224308006194 Histidine kinase; Region: HisKA_3; pfam07730 224308006195 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 224308006196 ATP binding site [chemical binding]; other site 224308006197 Mg2+ binding site [ion binding]; other site 224308006198 G-X-G motif; other site 224308006199 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 224308006200 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 224308006201 active site 224308006202 phosphorylation site [posttranslational modification] 224308006203 intermolecular recognition site; other site 224308006204 dimerization interface [polypeptide binding]; other site 224308006205 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 224308006206 DNA binding residues [nucleotide binding] 224308006207 dimerization interface [polypeptide binding]; other site 224308006208 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308006209 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308006210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 224308006211 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 224308006212 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 224308006213 ATP binding site [chemical binding]; other site 224308006214 putative Mg++ binding site [ion binding]; other site 224308006215 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 224308006216 nucleotide binding region [chemical binding]; other site 224308006217 ATP-binding site [chemical binding]; other site 224308006218 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 224308006219 Helicase and RNase D C-terminal; Region: HRDC; smart00341 224308006220 azoreductase; Provisional; Region: PRK13556 224308006221 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 224308006222 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 224308006223 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 224308006224 putative dimer interface [polypeptide binding]; other site 224308006225 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 224308006226 pentamer interface [polypeptide binding]; other site 224308006227 dodecaamer interface [polypeptide binding]; other site 224308006228 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 224308006229 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 224308006230 NAD(P) binding site [chemical binding]; other site 224308006231 catalytic residues [active] 224308006232 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 224308006233 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 224308006234 Active site cavity [active] 224308006235 Squalene cyclase [Lipid metabolism]; Region: SqhC; COG1657 224308006236 catalytic acid [active] 224308006237 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 224308006238 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 224308006239 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 224308006240 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 224308006241 Na2 binding site [ion binding]; other site 224308006242 putative substrate binding site 1 [chemical binding]; other site 224308006243 Na binding site 1 [ion binding]; other site 224308006244 putative substrate binding site 2 [chemical binding]; other site 224308006245 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 224308006246 Sodium Bile acid symporter family; Region: SBF; pfam01758 224308006247 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 224308006248 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 224308006249 E3 interaction surface; other site 224308006250 lipoyl attachment site [posttranslational modification]; other site 224308006251 e3 binding domain; Region: E3_binding; pfam02817 224308006252 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 224308006253 2-oxoglutarate dehydrogenase, E1 component; Region: 2oxo_dh_E1; TIGR00239 224308006254 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 224308006255 TPP-binding site [chemical binding]; other site 224308006256 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 224308006257 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 224308006258 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 224308006259 metal ion-dependent adhesion site (MIDAS); other site 224308006260 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 224308006261 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 224308006262 Walker A motif; other site 224308006263 ATP binding site [chemical binding]; other site 224308006264 Walker B motif; other site 224308006265 arginine finger; other site 224308006266 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 224308006267 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 224308006268 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 224308006269 E-class dimer interface [polypeptide binding]; other site 224308006270 P-class dimer interface [polypeptide binding]; other site 224308006271 active site 224308006272 Cu2+ binding site [ion binding]; other site 224308006273 Zn2+ binding site [ion binding]; other site 224308006274 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308006275 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308006276 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308006277 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308006278 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 224308006279 NlpC/P60 family; Region: NLPC_P60; pfam00877 224308006280 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 224308006281 glycosyltransferase, MGT family; Region: MGT; TIGR01426 224308006282 active site 224308006283 TDP-binding site; other site 224308006284 acceptor substrate-binding pocket; other site 224308006285 Uncharacterized conserved protein [Function unknown]; Region: COG1624 224308006286 Bacterial membrane-spanning protein N-terminus; Region: YojJ; pfam10372 224308006287 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 224308006288 multidrug efflux protein; Reviewed; Region: PRK01766 224308006289 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 224308006290 cation binding site [ion binding]; other site 224308006291 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 224308006292 bacillithiol biosynthesis deacetylase BshB2; Region: thiol_BshB2; TIGR04000 224308006293 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 224308006294 rarD protein; Region: rarD; TIGR00688 224308006295 EamA-like transporter family; Region: EamA; pfam00892 224308006296 GntP family permease; Region: GntP_permease; pfam02447 224308006297 fructuronate transporter; Provisional; Region: PRK10034; cl15264 224308006298 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 224308006299 Predicted transcriptional regulators [Transcription]; Region: COG1733 224308006300 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 224308006301 dimerization interface [polypeptide binding]; other site 224308006302 putative DNA binding site [nucleotide binding]; other site 224308006303 putative Zn2+ binding site [ion binding]; other site 224308006304 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 224308006305 dimer interface [polypeptide binding]; other site 224308006306 FMN binding site [chemical binding]; other site 224308006307 Predicted esterase [General function prediction only]; Region: COG0400 224308006308 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 224308006309 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308006310 Zn binding site [ion binding]; other site 224308006311 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 224308006312 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308006313 Zn binding site [ion binding]; other site 224308006314 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 224308006315 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 224308006316 Na binding site [ion binding]; other site 224308006317 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 224308006318 C-terminal peptidase (prc); Region: prc; TIGR00225 224308006319 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 224308006320 protein binding site [polypeptide binding]; other site 224308006321 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 224308006322 Catalytic dyad [active] 224308006323 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224308006324 Methyltransferase domain; Region: Methyltransf_31; pfam13847 224308006325 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 224308006326 S-adenosylmethionine binding site [chemical binding]; other site 224308006327 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 224308006328 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 224308006329 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 224308006330 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 224308006331 YodL-like; Region: YodL; pfam14191 224308006332 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 224308006333 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 224308006334 active site 224308006335 YozD-like protein; Region: YozD; pfam14162 224308006336 hypothetical protein; Provisional; Region: PRK13672 224308006337 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 224308006338 toxin interface [polypeptide binding]; other site 224308006339 Zn binding site [ion binding]; other site 224308006340 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 224308006341 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 224308006342 FeS/SAM binding site; other site 224308006343 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 224308006344 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 224308006345 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308006346 Coenzyme A binding pocket [chemical binding]; other site 224308006347 acetylornithine deacetylase; Validated; Region: PRK06915 224308006348 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 224308006349 metal binding site [ion binding]; metal-binding site 224308006350 dimer interface [polypeptide binding]; other site 224308006351 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 224308006352 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 224308006353 hypothetical protein; Provisional; Region: PRK06917 224308006354 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 224308006355 inhibitor-cofactor binding pocket; inhibition site 224308006356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308006357 catalytic residue [active] 224308006358 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308006359 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 224308006360 Coenzyme A binding pocket [chemical binding]; other site 224308006361 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 224308006362 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 224308006363 active site 224308006364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 224308006365 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 224308006366 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 224308006367 Phytase; Region: Phytase; pfam02333 224308006368 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe: enzyme 224308006369 Penicillin-binding protein-related factor A, putative recombinase [General function prediction only]; Region: PrfA; COG3331 224308006370 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 224308006371 non-specific DNA binding site [nucleotide binding]; other site 224308006372 salt bridge; other site 224308006373 sequence-specific DNA binding site [nucleotide binding]; other site 224308006374 Rubrerythrin [Energy production and conversion]; Region: COG1592 224308006375 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 224308006376 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 224308006377 active site 224308006378 metal binding site [ion binding]; metal-binding site 224308006379 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 224308006380 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 224308006381 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 224308006382 trimer interface [polypeptide binding]; other site 224308006383 active site 224308006384 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 224308006385 catalytic residues [active] 224308006386 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 224308006387 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 224308006388 dimer interface [polypeptide binding]; other site 224308006389 putative radical transfer pathway; other site 224308006390 diiron center [ion binding]; other site 224308006391 tyrosyl radical; other site 224308006392 HNH endonuclease; Region: HNH_3; pfam13392 224308006393 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 224308006394 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 224308006395 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 224308006396 protein-splicing catalytic site; other site 224308006397 thioester formation/cholesterol transfer; other site 224308006398 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 224308006399 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 224308006400 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 224308006401 ribonucleoside-diphosphate reductase 2, operon protein nrdI; Region: nrdI; TIGR00333 224308006402 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 224308006403 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 224308006404 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 224308006405 cofactor binding site; other site 224308006406 DNA binding site [nucleotide binding] 224308006407 substrate interaction site [chemical binding]; other site 224308006408 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 224308006409 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]; Region: COG4502 224308006410 AAA domain; Region: AAA_33; pfam13671 224308006411 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 224308006412 active site 224308006413 YorP protein; Region: YorP; pfam09629 224308006414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 224308006415 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 224308006416 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 224308006417 active site 224308006418 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 224308006419 DHH family; Region: DHH; pfam01368 224308006420 hypothetical protein; Provisional; Region: PRK08624 224308006421 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 224308006422 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 224308006423 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 224308006424 ATP binding site [chemical binding]; other site 224308006425 Walker B motif; other site 224308006426 AAA domain; Region: AAA_24; pfam13479 224308006427 Right handed beta helix region; Region: Beta_helix; pfam13229 224308006428 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 224308006429 Phage-related replication protein [General function prediction only]; Region: COG4195 224308006430 Uncharacterized conserved protein [Function unknown]; Region: COG2135 224308006431 ATP-dependent DNA ligase; Reviewed; Region: ligB; PRK07636 224308006432 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 224308006433 active site 224308006434 DNA binding site [nucleotide binding] 224308006435 YoqO-like protein; Region: YoqO; pfam14037 224308006436 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 224308006437 active site 224308006438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4474 224308006439 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 224308006440 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 224308006441 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3645 224308006442 YopX protein; Region: YopX; pfam09643 224308006443 Hypothetical protein Yopt; Region: Yopt; pfam09467 224308006444 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 224308006445 salt bridge; other site 224308006446 non-specific DNA binding site [nucleotide binding]; other site 224308006447 sequence-specific DNA binding site [nucleotide binding]; other site 224308006448 DNA-sulfur modification-associated; Region: DndB; pfam14072 224308006449 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 224308006450 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 224308006451 active site 224308006452 catalytic residues [active] 224308006453 DNA binding site [nucleotide binding] 224308006454 Int/Topo IB signature motif; other site 224308006455 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 224308006456 non-specific DNA binding site [nucleotide binding]; other site 224308006457 salt bridge; other site 224308006458 sequence-specific DNA binding site [nucleotide binding]; other site 224308006459 Superinfection exclusion protein B; Region: SieB; pfam14163 224308006460 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 224308006461 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 224308006462 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 224308006463 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224308006464 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 224308006465 non-specific DNA binding site [nucleotide binding]; other site 224308006466 salt bridge; other site 224308006467 sequence-specific DNA binding site [nucleotide binding]; other site 224308006468 RNA dependent RNA polymerase; Region: RdRP; pfam05183 224308006469 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 224308006470 IHF - DNA interface [nucleotide binding]; other site 224308006471 IHF dimer interface [polypeptide binding]; other site 224308006472 YonK protein; Region: YonK; pfam09642 224308006473 Terminase-like family; Region: Terminase_6; pfam03237 224308006474 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 224308006475 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; pfam09693 224308006476 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 224308006477 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 224308006478 active site 224308006479 catalytic residues [active] 224308006480 DNA binding site [nucleotide binding] 224308006481 Int/Topo IB signature motif; other site 224308006482 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 224308006483 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 224308006484 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 224308006485 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224308006486 catalytic residue [active] 224308006487 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 224308006488 Peptidase family M23; Region: Peptidase_M23; pfam01551 224308006489 Phage-related protein [Function unknown]; Region: COG4722 224308006490 Phage tail protein; Region: Sipho_tail; cl17486 224308006491 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 224308006492 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 224308006493 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 224308006494 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 224308006495 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 224308006496 amidase catalytic site [active] 224308006497 Zn binding residues [ion binding]; other site 224308006498 substrate binding site [chemical binding]; other site 224308006499 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 224308006500 holin, SPP1 family; Region: holin_SPP1; TIGR01592 224308006501 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 224308006502 peptide S-glycosyltransferase, SunS family; Region: S_glycosyl_SunS; TIGR04195 224308006503 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 224308006504 active site 224308006505 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 224308006506 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 224308006507 catalytic residues [active] 224308006508 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 224308006509 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_C39B; cd02418 224308006510 putative active site [active] 224308006511 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224308006512 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 224308006513 Walker A/P-loop; other site 224308006514 ATP binding site [chemical binding]; other site 224308006515 Q-loop/lid; other site 224308006516 ABC transporter signature motif; other site 224308006517 Walker B; other site 224308006518 D-loop; other site 224308006519 H-loop/switch region; other site 224308006520 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 224308006521 DNA polymerase IV; Reviewed; Region: PRK03103 224308006522 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 224308006523 active site 224308006524 DNA binding site [nucleotide binding] 224308006525 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 224308006526 YolD-like protein; Region: YolD; pfam08863 224308006527 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 224308006528 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308006529 Coenzyme A binding pocket [chemical binding]; other site 224308006530 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 224308006531 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 224308006532 Uncharacterized conserved protein [Function unknown]; Region: COG5444 224308006533 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 224308006534 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe: enzyme 224308006535 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe: enzyme 224308006536 Staphylococcal nuclease homologues; Region: SNc; smart00318 224308006537 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 224308006538 Catalytic site; other site 224308006539 Excalibur calcium-binding domain; Region: Excalibur; smart00894 224308006540 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 224308006541 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 224308006542 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 224308006543 catalytic residues [active] 224308006544 catalytic nucleophile [active] 224308006545 Recombinase; Region: Recombinase; pfam07508 224308006546 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe: enzyme 224308006547 methionine sulfoxide reductase B; Provisional; Region: PRK00222 224308006548 SelR domain; Region: SelR; pfam01641 224308006549 methionine sulfoxide reductase A; Provisional; Region: PRK14054 224308006550 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308006551 MarR family; Region: MarR; pfam01047 224308006552 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 224308006553 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 224308006554 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4698 224308006555 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 224308006556 active site 224308006557 catalytic triad [active] 224308006558 oxyanion hole [active] 224308006559 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 224308006560 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 224308006561 Cu(I) binding site [ion binding]; other site 224308006562 Protein of unknown function (DUF2535); Region: DUF2535; pfam10751 224308006563 threonine dehydratase; Validated; Region: PRK08639 224308006564 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 224308006565 tetramer interface [polypeptide binding]; other site 224308006566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308006567 catalytic residue [active] 224308006568 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 224308006569 putative Ile/Val binding site [chemical binding]; other site 224308006570 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 224308006571 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 224308006572 Walker A motif; other site 224308006573 ATP binding site [chemical binding]; other site 224308006574 Walker B motif; other site 224308006575 arginine finger; other site 224308006576 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 224308006577 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 224308006578 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 224308006579 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 224308006580 putative acyl-acceptor binding pocket; other site 224308006581 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 224308006582 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 224308006583 folate binding site [chemical binding]; other site 224308006584 NADP+ binding site [chemical binding]; other site 224308006585 thymidylate synthase; Reviewed; Region: thyA; PRK01827 224308006586 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 224308006587 dimerization interface [polypeptide binding]; other site 224308006588 active site 224308006589 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 224308006590 tetramer interfaces [polypeptide binding]; other site 224308006591 binuclear metal-binding site [ion binding]; other site 224308006592 YpjP-like protein; Region: YpjP; pfam14005 224308006593 ribosomal biogenesis protein; Validated; Region: PRK00933 224308006594 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 224308006595 S-adenosylmethionine binding site [chemical binding]; other site 224308006596 Disulphide isomerase; Region: Disulph_isomer; pfam06491 224308006597 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 224308006598 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 224308006599 Virulence factor; Region: Virulence_fact; pfam13769 224308006600 HEAT repeats; Region: HEAT_2; pfam13646 224308006601 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 224308006602 HEAT repeats; Region: HEAT_2; pfam13646 224308006603 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 224308006604 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 224308006605 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 224308006606 Zn2+ binding site [ion binding]; other site 224308006607 Mg2+ binding site [ion binding]; other site 224308006608 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 224308006609 catalytic residues [active] 224308006610 dimer interface [polypeptide binding]; other site 224308006611 homoserine O-succinyltransferase; Provisional; Region: PRK05368 224308006612 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 224308006613 proposed active site lysine [active] 224308006614 conserved cys residue [active] 224308006615 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 224308006616 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 224308006617 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 224308006618 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 224308006619 DNA-binding site [nucleotide binding]; DNA binding site 224308006620 RNA-binding motif; other site 224308006621 Protein of unknown function (DUF2564); Region: DUF2564; pfam10819 224308006622 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 224308006623 hypothetical protein; Validated; Region: PRK07708 224308006624 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 224308006625 RNA/DNA hybrid binding site [nucleotide binding]; other site 224308006626 active site 224308006627 conserved hypothetical integral membrane protein; Region: TIGR00697 224308006628 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 224308006629 RNA/DNA hybrid binding site [nucleotide binding]; other site 224308006630 active site 224308006631 small, acid-soluble spore protein L; Region: SASP_sspL; TIGR03093 224308006632 5'-3' exonuclease; Region: 53EXOc; smart00475 224308006633 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 224308006634 active site 224308006635 metal binding site 1 [ion binding]; metal-binding site 224308006636 putative 5' ssDNA interaction site; other site 224308006637 metal binding site 3; metal-binding site 224308006638 metal binding site 2 [ion binding]; metal-binding site 224308006639 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 224308006640 putative DNA binding site [nucleotide binding]; other site 224308006641 putative metal binding site [ion binding]; other site 224308006642 Protein of unknown function (DUF2533); Region: DUF2533; pfam10752 224308006643 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 224308006644 Dynamin family; Region: Dynamin_N; pfam00350 224308006645 G1 box; other site 224308006646 GTP/Mg2+ binding site [chemical binding]; other site 224308006647 G2 box; other site 224308006648 Switch I region; other site 224308006649 G3 box; other site 224308006650 Switch II region; other site 224308006651 G4 box; other site 224308006652 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 224308006653 G1 box; other site 224308006654 GTP/Mg2+ binding site [chemical binding]; other site 224308006655 Dynamin family; Region: Dynamin_N; pfam00350 224308006656 G2 box; other site 224308006657 Switch I region; other site 224308006658 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 224308006659 G3 box; other site 224308006660 Switch II region; other site 224308006661 GTP/Mg2+ binding site [chemical binding]; other site 224308006662 G4 box; other site 224308006663 G5 box; other site 224308006664 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 224308006665 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 224308006666 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 224308006667 malonyl-CoA binding site [chemical binding]; other site 224308006668 dimer interface [polypeptide binding]; other site 224308006669 active site 224308006670 product binding site; other site 224308006671 xanthine permease; Region: pbuX; TIGR03173 224308006672 Sulfate transporter family; Region: Sulfate_transp; pfam00916 224308006673 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224308006674 active site 224308006675 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 224308006676 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 224308006677 active site 224308006678 Zn binding site [ion binding]; other site 224308006679 2-keto-3-deoxygluconate permease; Region: KdgT; pfam03812 224308006680 Entner-Doudoroff aldolase; Region: eda; TIGR01182 224308006681 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 224308006682 active site 224308006683 intersubunit interface [polypeptide binding]; other site 224308006684 catalytic residue [active] 224308006685 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 224308006686 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 224308006687 substrate binding site [chemical binding]; other site 224308006688 ATP binding site [chemical binding]; other site 224308006689 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224308006690 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224308006691 DNA binding site [nucleotide binding] 224308006692 domain linker motif; other site 224308006693 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 224308006694 putative dimerization interface [polypeptide binding]; other site 224308006695 putative ligand binding site [chemical binding]; other site 224308006696 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 224308006697 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 224308006698 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 224308006699 NADP binding site [chemical binding]; other site 224308006700 homodimer interface [polypeptide binding]; other site 224308006701 active site 224308006702 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 224308006703 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 224308006704 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 224308006705 YpzG-like protein; Region: YpzG; pfam14139 224308006706 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 224308006707 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 224308006708 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 224308006709 cell division protein GpsB; Provisional; Region: PRK14127 224308006710 DivIVA domain; Region: DivI1A_domain; TIGR03544 224308006711 hypothetical protein; Provisional; Region: PRK13660 224308006712 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 224308006713 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 224308006714 RNase_H superfamily; Region: RNase_H_2; pfam13482 224308006715 active site 224308006716 substrate binding site [chemical binding]; other site 224308006717 Tetratricopeptide repeat; Region: TPR_16; pfam13432 224308006718 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 224308006719 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 224308006720 ATP binding site [chemical binding]; other site 224308006721 putative Mg++ binding site [ion binding]; other site 224308006722 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 224308006723 nucleotide binding region [chemical binding]; other site 224308006724 ATP-binding site [chemical binding]; other site 224308006725 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 224308006726 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 224308006727 HPr interaction site; other site 224308006728 glycerol kinase (GK) interaction site [polypeptide binding]; other site 224308006729 active site 224308006730 phosphorylation site [posttranslational modification] 224308006731 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 224308006732 YppG-like protein; Region: YppG; pfam14179 224308006733 YppF-like protein; Region: YppF; pfam14178 224308006734 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 224308006735 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 224308006736 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 224308006737 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 224308006738 Transglycosylase; Region: Transgly; pfam00912 224308006739 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 224308006740 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 224308006741 Interdomain contacts; other site 224308006742 Cytokine receptor motif; other site 224308006743 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 224308006744 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 224308006745 minor groove reading motif; other site 224308006746 helix-hairpin-helix signature motif; other site 224308006747 substrate binding pocket [chemical binding]; other site 224308006748 active site 224308006749 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 224308006750 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 224308006751 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 224308006752 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 224308006753 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 224308006754 putative dimer interface [polypeptide binding]; other site 224308006755 putative anticodon binding site; other site 224308006756 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 224308006757 homodimer interface [polypeptide binding]; other site 224308006758 motif 1; other site 224308006759 motif 2; other site 224308006760 active site 224308006761 motif 3; other site 224308006762 aspartate aminotransferase; Provisional; Region: PRK05764 224308006763 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 224308006764 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308006765 homodimer interface [polypeptide binding]; other site 224308006766 catalytic residue [active] 224308006767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 224308006768 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 224308006769 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 224308006770 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 224308006771 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 224308006772 active site 224308006773 catalytic site [active] 224308006774 substrate binding site [chemical binding]; other site 224308006775 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 224308006776 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 224308006777 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 224308006778 tetramerization interface [polypeptide binding]; other site 224308006779 active site 224308006780 pantoate--beta-alanine ligase; Region: panC; TIGR00018 224308006781 Pantoate-beta-alanine ligase; Region: PanC; cd00560 224308006782 active site 224308006783 ATP-binding site [chemical binding]; other site 224308006784 pantoate-binding site; other site 224308006785 HXXH motif; other site 224308006786 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 224308006787 oligomerization interface [polypeptide binding]; other site 224308006788 active site 224308006789 metal binding site [ion binding]; metal-binding site 224308006790 Biotin operon repressor [Transcription]; Region: BirA; COG1654 224308006791 birA, biotin-[acetyl-CoA-carboxylase] ligase region; Region: birA_ligase; TIGR00121 224308006792 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 224308006793 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 224308006794 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 224308006795 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 224308006796 active site 224308006797 NTP binding site [chemical binding]; other site 224308006798 metal binding triad [ion binding]; metal-binding site 224308006799 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 224308006800 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 224308006801 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 224308006802 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 224308006803 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 224308006804 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 224308006805 active site 224308006806 dimer interfaces [polypeptide binding]; other site 224308006807 catalytic residues [active] 224308006808 dihydrodipicolinate reductase; Region: dapB; TIGR00036 224308006809 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 224308006810 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 224308006811 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 224308006812 homodimer interface [polypeptide binding]; other site 224308006813 metal binding site [ion binding]; metal-binding site 224308006814 Uncharacterized conserved protein [Function unknown]; Region: COG1284 224308006815 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224308006816 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224308006817 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 224308006818 Sporulation protein YpjB (SpoYpjB); Region: Spore_YpjB; pfam09577 224308006819 Predicted membrane protein [Function unknown]; Region: COG4347 224308006820 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 224308006821 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 224308006822 intrachain domain interface; other site 224308006823 Qi binding site; other site 224308006824 Qo binding site; other site 224308006825 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 224308006826 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 224308006827 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 224308006828 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 224308006829 interchain domain interface [polypeptide binding]; other site 224308006830 intrachain domain interface; other site 224308006831 heme bH binding site [chemical binding]; other site 224308006832 Qi binding site; other site 224308006833 heme bL binding site [chemical binding]; other site 224308006834 Qo binding site; other site 224308006835 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 224308006836 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 224308006837 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 224308006838 iron-sulfur cluster [ion binding]; other site 224308006839 [2Fe-2S] cluster binding site [ion binding]; other site 224308006840 Protein of unknown function (DUF2487); Region: DUF2487; pfam10673 224308006841 hypothetical protein; Provisional; Region: PRK03636 224308006842 UPF0302 domain; Region: UPF0302; pfam08864 224308006843 IDEAL domain; Region: IDEAL; pfam08858 224308006844 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 224308006845 TPR motif; other site 224308006846 binding surface 224308006847 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 224308006848 binding surface 224308006849 TPR motif; other site 224308006850 Tetratricopeptide repeat; Region: TPR_16; pfam13432 224308006851 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 224308006852 TPR motif; other site 224308006853 binding surface 224308006854 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 224308006855 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 224308006856 binding surface 224308006857 TPR motif; other site 224308006858 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 224308006859 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 224308006860 hinge; other site 224308006861 active site 224308006862 prephenate dehydrogenase; Validated; Region: PRK06545 224308006863 prephenate dehydrogenase; Validated; Region: PRK08507 224308006864 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 224308006865 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 224308006866 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 224308006867 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308006868 homodimer interface [polypeptide binding]; other site 224308006869 catalytic residue [active] 224308006870 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 224308006871 substrate binding site [chemical binding]; other site 224308006872 active site 224308006873 catalytic residues [active] 224308006874 heterodimer interface [polypeptide binding]; other site 224308006875 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 224308006876 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 224308006877 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308006878 catalytic residue [active] 224308006879 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 224308006880 active site 224308006881 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 224308006882 active site 224308006883 ribulose/triose binding site [chemical binding]; other site 224308006884 phosphate binding site [ion binding]; other site 224308006885 substrate (anthranilate) binding pocket [chemical binding]; other site 224308006886 product (indole) binding pocket [chemical binding]; other site 224308006887 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 224308006888 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 224308006889 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 224308006890 anthranilate synthase component I; Provisional; Region: PRK13569 224308006891 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 224308006892 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 224308006893 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 224308006894 homotrimer interaction site [polypeptide binding]; other site 224308006895 active site 224308006896 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 224308006897 active site 224308006898 dimer interface [polypeptide binding]; other site 224308006899 metal binding site [ion binding]; metal-binding site 224308006900 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 224308006901 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 224308006902 Tetramer interface [polypeptide binding]; other site 224308006903 active site 224308006904 FMN-binding site [chemical binding]; other site 224308006905 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 224308006906 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 224308006907 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 224308006908 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 224308006909 active site 224308006910 multimer interface [polypeptide binding]; other site 224308006911 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 224308006912 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 224308006913 substrate binding pocket [chemical binding]; other site 224308006914 chain length determination region; other site 224308006915 substrate-Mg2+ binding site; other site 224308006916 catalytic residues [active] 224308006917 aspartate-rich region 1; other site 224308006918 active site lid residues [active] 224308006919 aspartate-rich region 2; other site 224308006920 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 224308006921 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 224308006922 S-adenosylmethionine binding site [chemical binding]; other site 224308006923 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 224308006924 Tryptophan RNA-binding attenuator protein; Region: TrpBP; pfam02081 224308006925 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 224308006926 homodecamer interface [polypeptide binding]; other site 224308006927 GTP cyclohydrolase I; Provisional; Region: PLN03044 224308006928 active site 224308006929 putative catalytic site residues [active] 224308006930 zinc binding site [ion binding]; other site 224308006931 GTP-CH-I/GFRP interaction surface; other site 224308006932 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 224308006933 IHF dimer interface [polypeptide binding]; other site 224308006934 IHF - DNA interface [nucleotide binding]; other site 224308006935 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 224308006936 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 224308006937 Protein of unknown function (DUF2768); Region: DUF2768; pfam10966 224308006938 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 224308006939 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 224308006940 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 224308006941 GTP-binding protein Der; Reviewed; Region: PRK00093 224308006942 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 224308006943 G1 box; other site 224308006944 GTP/Mg2+ binding site [chemical binding]; other site 224308006945 Switch I region; other site 224308006946 G2 box; other site 224308006947 Switch II region; other site 224308006948 G3 box; other site 224308006949 G4 box; other site 224308006950 G5 box; other site 224308006951 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 224308006952 G1 box; other site 224308006953 GTP/Mg2+ binding site [chemical binding]; other site 224308006954 Switch I region; other site 224308006955 G2 box; other site 224308006956 G3 box; other site 224308006957 Switch II region; other site 224308006958 G4 box; other site 224308006959 G5 box; other site 224308006960 YIEGIA protein; Region: YIEGIA; pfam14045 224308006961 YpzI-like protein; Region: YpzI; pfam14140 224308006962 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 224308006963 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 224308006964 homotetramer interface [polypeptide binding]; other site 224308006965 FMN binding site [chemical binding]; other site 224308006966 homodimer contacts [polypeptide binding]; other site 224308006967 putative active site [active] 224308006968 putative substrate binding site [chemical binding]; other site 224308006969 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 224308006970 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 224308006971 RNA binding site [nucleotide binding]; other site 224308006972 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 224308006973 RNA binding site [nucleotide binding]; other site 224308006974 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 224308006975 RNA binding site [nucleotide binding]; other site 224308006976 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 224308006977 RNA binding site [nucleotide binding]; other site 224308006978 cytidylate kinase; Provisional; Region: cmk; PRK00023 224308006979 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 224308006980 CMP-binding site; other site 224308006981 The sites determining sugar specificity; other site 224308006982 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 224308006983 Flagellar protein YcgR; Region: YcgR_2; pfam12945 224308006984 PilZ domain; Region: PilZ; pfam07238 224308006985 germination protein YpeB; Region: spore_YpeB; TIGR02889 224308006986 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224308006987 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 224308006988 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 224308006989 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 224308006990 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 224308006991 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224308006992 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 224308006993 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 224308006994 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 224308006995 NAD(P) binding site [chemical binding]; other site 224308006996 adaptor protein; Provisional; Region: PRK02899 224308006997 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 224308006998 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 224308006999 putative active site [active] 224308007000 putative metal binding site [ion binding]; other site 224308007001 Protein of unknown function (DUF2663); Region: DUF2663; pfam10864 224308007002 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308007003 CAAX protease self-immunity; Region: Abi; pfam02517 224308007004 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 224308007005 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 224308007006 ATP binding site [chemical binding]; other site 224308007007 putative Mg++ binding site [ion binding]; other site 224308007008 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 224308007009 nucleotide binding region [chemical binding]; other site 224308007010 ATP-binding site [chemical binding]; other site 224308007011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 224308007012 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 224308007013 Predicted membrane protein [Function unknown]; Region: COG3601 224308007014 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 224308007015 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 224308007016 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 224308007017 ligand binding site [chemical binding]; other site 224308007018 NAD binding site [chemical binding]; other site 224308007019 dimerization interface [polypeptide binding]; other site 224308007020 catalytic site [active] 224308007021 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 224308007022 putative L-serine binding site [chemical binding]; other site 224308007023 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 224308007024 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 224308007025 active site 224308007026 catalytic residue [active] 224308007027 dimer interface [polypeptide binding]; other site 224308007028 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 224308007029 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308007030 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 224308007031 DNA binding residues [nucleotide binding] 224308007032 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 224308007033 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 224308007034 dimerization interface [polypeptide binding]; other site 224308007035 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 224308007036 putative active site [active] 224308007037 heme pocket [chemical binding]; other site 224308007038 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 224308007039 dimer interface [polypeptide binding]; other site 224308007040 phosphorylation site [posttranslational modification] 224308007041 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 224308007042 ATP binding site [chemical binding]; other site 224308007043 Mg2+ binding site [ion binding]; other site 224308007044 G-X-G motif; other site 224308007045 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224308007046 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 224308007047 active site 224308007048 phosphorylation site [posttranslational modification] 224308007049 intermolecular recognition site; other site 224308007050 dimerization interface [polypeptide binding]; other site 224308007051 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 224308007052 DNA binding site [nucleotide binding] 224308007053 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 224308007054 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 224308007055 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 224308007056 ResB-like family; Region: ResB; pfam05140 224308007057 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 224308007058 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 224308007059 catalytic residues [active] 224308007060 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 224308007061 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 224308007062 RNA binding surface [nucleotide binding]; other site 224308007063 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 224308007064 active site 224308007065 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 224308007066 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 224308007067 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 224308007068 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 224308007069 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 224308007070 Protein of unknown function (DUF3907); Region: DUF3907; pfam13047 224308007071 segregation and condensation protein B; Region: TIGR00281 224308007072 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 224308007073 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1547 224308007074 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308007075 Coenzyme A binding pocket [chemical binding]; other site 224308007076 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 224308007077 homopentamer interface [polypeptide binding]; other site 224308007078 active site 224308007079 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 224308007080 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 224308007081 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 224308007082 dimerization interface [polypeptide binding]; other site 224308007083 active site 224308007084 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 224308007085 Lumazine binding domain; Region: Lum_binding; pfam00677 224308007086 Lumazine binding domain; Region: Lum_binding; pfam00677 224308007087 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 224308007088 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 224308007089 catalytic motif [active] 224308007090 Zn binding site [ion binding]; other site 224308007091 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 224308007092 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 224308007093 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 224308007094 Catalytic site [active] 224308007095 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 224308007096 Evidence 5: No homology to any previously reported sequences 224308007097 Evidence 5: No homology to any previously reported sequences; PubMedId: 15849754, 16850406 224308007098 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 224308007099 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 224308007100 active site 224308007101 Predicted secreted protein [Function unknown]; Region: COG4086 224308007102 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 224308007103 diaminopimelate decarboxylase; Region: lysA; TIGR01048 224308007104 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 224308007105 active site 224308007106 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 224308007107 substrate binding site [chemical binding]; other site 224308007108 catalytic residues [active] 224308007109 dimer interface [polypeptide binding]; other site 224308007110 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 224308007111 Stage V sporulation protein AE1; Region: SpoVAE; pfam14097 224308007112 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 224308007113 stage V sporulation protein AD; Validated; Region: PRK08304 224308007114 stage V sporulation protein AD; Provisional; Region: PRK12404 224308007115 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 224308007116 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 224308007117 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 224308007118 sporulation sigma factor SigF; Validated; Region: PRK05572 224308007119 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308007120 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 224308007121 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 224308007122 DNA binding residues [nucleotide binding] 224308007123 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 224308007124 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 224308007125 ATP binding site [chemical binding]; other site 224308007126 Mg2+ binding site [ion binding]; other site 224308007127 G-X-G motif; other site 224308007128 anti-sigma F factor antagonist; Region: spore_II_AA; TIGR02886 224308007129 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 224308007130 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 224308007131 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 224308007132 purine nucleoside phosphorylase; Provisional; Region: PRK08202 224308007133 phosphopentomutase; Provisional; Region: PRK05362 224308007134 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 224308007135 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 224308007136 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 224308007137 active site 224308007138 Int/Topo IB signature motif; other site 224308007139 Protein of unknown function (DUF4227); Region: DUF4227; pfam14004 224308007140 ferric uptake regulator; Provisional; Region: fur; PRK09462 224308007141 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 224308007142 metal binding site 2 [ion binding]; metal-binding site 224308007143 putative DNA binding helix; other site 224308007144 metal binding site 1 [ion binding]; metal-binding site 224308007145 dimer interface [polypeptide binding]; other site 224308007146 structural Zn2+ binding site [ion binding]; other site 224308007147 stage II sporulation protein M; Region: spo_II_M; TIGR02831 224308007148 ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains; Region: ACT_MalLac-Enz; cd04887 224308007149 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 224308007150 Malic enzyme, N-terminal domain; Region: malic; pfam00390 224308007151 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 224308007152 NAD(P) binding pocket [chemical binding]; other site 224308007153 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 224308007154 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 224308007155 Aspartase; Region: Aspartase; cd01357 224308007156 active sites [active] 224308007157 tetramer interface [polypeptide binding]; other site 224308007158 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 224308007159 active site 224308007160 homodimer interface [polypeptide binding]; other site 224308007161 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224308007162 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 224308007163 non-specific DNA binding site [nucleotide binding]; other site 224308007164 salt bridge; other site 224308007165 sequence-specific DNA binding site [nucleotide binding]; other site 224308007166 TIGR00375 family protein; Region: TIGR00375 224308007167 PHP-associated; Region: PHP_C; pfam13263 224308007168 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 224308007169 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 224308007170 dimer interface [polypeptide binding]; other site 224308007171 ADP-ribose binding site [chemical binding]; other site 224308007172 active site 224308007173 nudix motif; other site 224308007174 metal binding site [ion binding]; metal-binding site 224308007175 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 224308007176 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 224308007177 active site 224308007178 catalytic tetrad [active] 224308007179 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 224308007180 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 224308007181 Eukaryotic protein of unknown function (DUF829); Region: DUF829; pfam05705 224308007182 Protein of unknown function (DUF2552); Region: DUF2552; pfam10827 224308007183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 224308007184 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 224308007185 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308007186 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 224308007187 Coenzyme A binding pocket [chemical binding]; other site 224308007188 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 224308007189 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 224308007190 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 224308007191 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308007192 Coenzyme A binding pocket [chemical binding]; other site 224308007193 YolD-like protein; Region: YolD; pfam08863 224308007194 DNA polymerase IV; Reviewed; Region: PRK03103 224308007195 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 224308007196 active site 224308007197 DNA binding site [nucleotide binding] 224308007198 YqzH-like protein; Region: YqzH; pfam14164 224308007199 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 224308007200 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308007201 putative substrate translocation pore; other site 224308007202 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_6; cd07242 224308007203 putative dimer interface [polypeptide binding]; other site 224308007204 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308007205 ligand binding site [chemical binding]; other site 224308007206 Zn binding site [ion binding]; other site 224308007207 pantothenate kinase; Provisional; Region: PRK05439 224308007208 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 224308007209 ATP-binding site [chemical binding]; other site 224308007210 CoA-binding site [chemical binding]; other site 224308007211 Mg2+-binding site [ion binding]; other site 224308007212 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 224308007213 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 224308007214 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224308007215 catalytic residue [active] 224308007216 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 224308007217 11beta-hydroxysteroid dehydrogenase type 1 (11beta-HSD1)-like, classical (c) SDRs; Region: 11beta-HSD1_like_SDR_c; cd05332 224308007218 NADP binding site [chemical binding]; other site 224308007219 homodimer interface [polypeptide binding]; other site 224308007220 substrate binding site [chemical binding]; other site 224308007221 active site 224308007222 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 224308007223 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 224308007224 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 224308007225 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 224308007226 putative metal binding site [ion binding]; other site 224308007227 putative dimer interface [polypeptide binding]; other site 224308007228 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 224308007229 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 224308007230 active site 224308007231 FMN binding site [chemical binding]; other site 224308007232 substrate binding site [chemical binding]; other site 224308007233 homotetramer interface [polypeptide binding]; other site 224308007234 catalytic residue [active] 224308007235 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 224308007236 putative hydrolase; Provisional; Region: PRK02113 224308007237 ribonuclease Z; Region: RNase_Z; TIGR02651 224308007238 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 224308007239 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 224308007240 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 224308007241 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 224308007242 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 224308007243 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 224308007244 DNA polymerase IV; Validated; Region: PRK01810 224308007245 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 224308007246 active site 224308007247 DNA binding site [nucleotide binding] 224308007248 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 224308007249 OxaA-like protein precursor; Validated; Region: PRK01622 224308007250 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 224308007251 Uncharacterized conserved protein (COG2071); Region: DUF2071; cl01329 224308007252 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 224308007253 peptidase T-like protein; Region: PepT-like; TIGR01883 224308007254 metal binding site [ion binding]; metal-binding site 224308007255 putative dimer interface [polypeptide binding]; other site 224308007256 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 224308007257 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 224308007258 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 224308007259 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308007260 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 224308007261 dimer interface [polypeptide binding]; other site 224308007262 substrate binding site [chemical binding]; other site 224308007263 metal binding site [ion binding]; metal-binding site 224308007264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 224308007265 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 224308007266 Predicted membrane protein [Function unknown]; Region: COG4129 224308007267 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 224308007268 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 224308007269 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 224308007270 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 224308007271 Walker A/P-loop; other site 224308007272 ATP binding site [chemical binding]; other site 224308007273 Q-loop/lid; other site 224308007274 ABC transporter signature motif; other site 224308007275 Walker B; other site 224308007276 D-loop; other site 224308007277 H-loop/switch region; other site 224308007278 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 224308007279 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 224308007280 dimer interface [polypeptide binding]; other site 224308007281 conserved gate region; other site 224308007282 putative PBP binding loops; other site 224308007283 ABC-ATPase subunit interface; other site 224308007284 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 224308007285 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 224308007286 substrate binding pocket [chemical binding]; other site 224308007287 membrane-bound complex binding site; other site 224308007288 hinge residues; other site 224308007289 Disulphide isomerase; Region: Disulph_isomer; pfam06491 224308007290 lipid kinase, YegS/Rv2252/BmrU family; Region: TIGR00147 224308007291 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 224308007292 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 224308007293 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308007294 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 224308007295 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 224308007296 DNA binding residues [nucleotide binding] 224308007297 drug binding residues [chemical binding]; other site 224308007298 dimer interface [polypeptide binding]; other site 224308007299 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 224308007300 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 224308007301 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 224308007302 E3 interaction surface; other site 224308007303 lipoyl attachment site [posttranslational modification]; other site 224308007304 e3 binding domain; Region: E3_binding; pfam02817 224308007305 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 224308007306 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 224308007307 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 224308007308 alpha subunit interface [polypeptide binding]; other site 224308007309 TPP binding site [chemical binding]; other site 224308007310 heterodimer interface [polypeptide binding]; other site 224308007311 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 224308007312 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 224308007313 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 224308007314 tetramer interface [polypeptide binding]; other site 224308007315 TPP-binding site [chemical binding]; other site 224308007316 heterodimer interface [polypeptide binding]; other site 224308007317 phosphorylation loop region [posttranslational modification] 224308007318 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 224308007319 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 224308007320 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224308007321 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 224308007322 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 224308007323 nucleotide binding site [chemical binding]; other site 224308007324 Acetokinase family; Region: Acetate_kinase; cl17229 224308007325 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 224308007326 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 224308007327 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 224308007328 NAD binding site [chemical binding]; other site 224308007329 Phe binding site; other site 224308007330 phosphate butyryltransferase; Validated; Region: PRK07742 224308007331 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 224308007332 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 224308007333 putative active site [active] 224308007334 heme pocket [chemical binding]; other site 224308007335 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 224308007336 putative active site [active] 224308007337 heme pocket [chemical binding]; other site 224308007338 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 224308007339 Walker A motif; other site 224308007340 ATP binding site [chemical binding]; other site 224308007341 Walker B motif; other site 224308007342 arginine finger; other site 224308007343 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 224308007344 Protein of unknown function (DUF2627); Region: DUF2627; pfam11118 224308007345 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 224308007346 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 224308007347 tetramer interface [polypeptide binding]; other site 224308007348 active site 224308007349 Mg2+/Mn2+ binding site [ion binding]; other site 224308007350 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 224308007351 2-methylcitrate dehydratase; Region: prpD; TIGR02330 224308007352 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 224308007353 dimer interface [polypeptide binding]; other site 224308007354 Citrate synthase; Region: Citrate_synt; pfam00285 224308007355 active site 224308007356 coenzyme A binding site [chemical binding]; other site 224308007357 citrylCoA binding site [chemical binding]; other site 224308007358 oxalacetate/citrate binding site [chemical binding]; other site 224308007359 catalytic triad [active] 224308007360 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 224308007361 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 224308007362 FAD binding site [chemical binding]; other site 224308007363 homotetramer interface [polypeptide binding]; other site 224308007364 substrate binding pocket [chemical binding]; other site 224308007365 catalytic base [active] 224308007366 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 224308007367 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 224308007368 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 224308007369 acetyl-CoA acetyltransferase; Provisional; Region: PRK08235 224308007370 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 224308007371 dimer interface [polypeptide binding]; other site 224308007372 active site 224308007373 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 224308007374 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 224308007375 active site 224308007376 catalytic site [active] 224308007377 metal binding site [ion binding]; metal-binding site 224308007378 dimer interface [polypeptide binding]; other site 224308007379 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 224308007380 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 224308007381 active site 224308007382 metal binding site [ion binding]; metal-binding site 224308007383 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 224308007384 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 224308007385 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 224308007386 putative active site [active] 224308007387 putative FMN binding site [chemical binding]; other site 224308007388 putative substrate binding site [chemical binding]; other site 224308007389 putative catalytic residue [active] 224308007390 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 224308007391 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 224308007392 active site 224308007393 phosphorylation site [posttranslational modification] 224308007394 intermolecular recognition site; other site 224308007395 dimerization interface [polypeptide binding]; other site 224308007396 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 224308007397 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 224308007398 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 224308007399 protein binding site [polypeptide binding]; other site 224308007400 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 224308007401 DNA repair protein RecN; Region: recN; TIGR00634 224308007402 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 224308007403 Walker A/P-loop; other site 224308007404 ATP binding site [chemical binding]; other site 224308007405 Q-loop/lid; other site 224308007406 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 224308007407 ABC transporter signature motif; other site 224308007408 Walker B; other site 224308007409 D-loop; other site 224308007410 H-loop/switch region; other site 224308007411 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 224308007412 arginine repressor; Provisional; Region: PRK04280 224308007413 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 224308007414 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 224308007415 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 224308007416 RNA binding surface [nucleotide binding]; other site 224308007417 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 224308007418 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 224308007419 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 224308007420 TPP-binding site; other site 224308007421 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 224308007422 PYR/PP interface [polypeptide binding]; other site 224308007423 dimer interface [polypeptide binding]; other site 224308007424 TPP binding site [chemical binding]; other site 224308007425 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 224308007426 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 224308007427 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 224308007428 substrate binding pocket [chemical binding]; other site 224308007429 chain length determination region; other site 224308007430 substrate-Mg2+ binding site; other site 224308007431 catalytic residues [active] 224308007432 aspartate-rich region 1; other site 224308007433 active site lid residues [active] 224308007434 aspartate-rich region 2; other site 224308007435 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14063 224308007436 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 224308007437 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 224308007438 generic binding surface II; other site 224308007439 generic binding surface I; other site 224308007440 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 224308007441 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 224308007442 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 224308007443 homodimer interface [polypeptide binding]; other site 224308007444 NADP binding site [chemical binding]; other site 224308007445 substrate binding site [chemical binding]; other site 224308007446 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 224308007447 putative RNA binding site [nucleotide binding]; other site 224308007448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 224308007449 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 224308007450 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 224308007451 ATP-grasp domain; Region: ATP-grasp_4; cl17255 224308007452 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 224308007453 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 224308007454 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 224308007455 carboxyltransferase (CT) interaction site; other site 224308007456 biotinylation site [posttranslational modification]; other site 224308007457 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 224308007458 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 224308007459 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 224308007460 stage III sporulation protein AE; Region: spore_III_AE; TIGR02829 224308007461 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 224308007462 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 224308007463 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 224308007464 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 224308007465 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 224308007466 Walker A motif; other site 224308007467 ATP binding site [chemical binding]; other site 224308007468 Walker B motif; other site 224308007469 arginine finger; other site 224308007470 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 224308007471 elongation factor P; Validated; Region: PRK00529 224308007472 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 224308007473 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 224308007474 RNA binding site [nucleotide binding]; other site 224308007475 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 224308007476 RNA binding site [nucleotide binding]; other site 224308007477 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 224308007478 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 224308007479 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 224308007480 active site 224308007481 Dehydroquinase class II; Region: DHquinase_II; pfam01220 224308007482 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 224308007483 trimer interface [polypeptide binding]; other site 224308007484 active site 224308007485 dimer interface [polypeptide binding]; other site 224308007486 Conserved membrane protein YqhR; Region: YqhR; pfam11085 224308007487 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 224308007488 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 224308007489 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 224308007490 active site 224308007491 nucleophile elbow; other site 224308007492 manganese transport transcriptional regulator; Provisional; Region: PRK03902 224308007493 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 224308007494 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 224308007495 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 224308007496 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 224308007497 active site residue [active] 224308007498 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 224308007499 tetramer interface [polypeptide binding]; other site 224308007500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308007501 catalytic residue [active] 224308007502 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 224308007503 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 224308007504 tetramer interface [polypeptide binding]; other site 224308007505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308007506 catalytic residue [active] 224308007507 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 224308007508 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 224308007509 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 224308007510 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 224308007511 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 224308007512 ATP binding site [chemical binding]; other site 224308007513 putative Mg++ binding site [ion binding]; other site 224308007514 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 224308007515 nucleotide binding region [chemical binding]; other site 224308007516 ATP-binding site [chemical binding]; other site 224308007517 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 224308007518 Anti-repressor SinI; Region: SinI; pfam08671 224308007519 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224308007520 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 224308007521 non-specific DNA binding site [nucleotide binding]; other site 224308007522 salt bridge; other site 224308007523 sequence-specific DNA binding site [nucleotide binding]; other site 224308007524 Anti-repressor SinI; Region: SinI; pfam08671 224308007525 Camelysin metallo-endopeptidase; Region: Peptidase_M73; cl13780 224308007526 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 224308007527 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 224308007528 Catalytic site [active] 224308007529 YqxM protein; Region: YqxM_for_SipW; TIGR04087 224308007530 Protein of unknown function (DUF3889); Region: DUF3889; pfam13028 224308007531 YqzE-like protein; Region: YqzE; pfam14038 224308007532 ComG operon protein 7; Region: ComGG; pfam14173 224308007533 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 224308007534 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 224308007535 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 224308007536 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 224308007537 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 224308007538 Type II/IV secretion system protein; Region: T2SE; pfam00437 224308007539 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 224308007540 Walker A motif; other site 224308007541 ATP binding site [chemical binding]; other site 224308007542 Walker B motif; other site 224308007543 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 224308007544 Escherichia coli CorA-Salmonella typhimurium ZntB_like family; Region: EcCorA_ZntB-like; cd12821 224308007545 Cl binding site [ion binding]; other site 224308007546 oligomer interface [polypeptide binding]; other site 224308007547 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 224308007548 Domain of unknown function DUF21; Region: DUF21; pfam01595 224308007549 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 224308007550 Transporter associated domain; Region: CorC_HlyC; smart01091 224308007551 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 224308007552 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 224308007553 ArsC family; Region: ArsC; pfam03960 224308007554 putative catalytic residues [active] 224308007555 thiol/disulfide switch; other site 224308007556 Protein of unknown function (DUF2626); Region: DUF2626; pfam11117 224308007557 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 224308007558 Protein of unknown function (DUF2759); Region: DUF2759; pfam10958 224308007559 Uncharacterized conserved protein [Function unknown]; Region: COG0011 224308007560 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 224308007561 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 224308007562 putative active site [active] 224308007563 Zn binding site [ion binding]; other site 224308007564 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 224308007565 Sulfatase; Region: Sulfatase; pfam00884 224308007566 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 224308007567 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 224308007568 nucleotide binding site [chemical binding]; other site 224308007569 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4483 224308007570 Rhomboid family; Region: Rhomboid; pfam01694 224308007571 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 224308007572 binding surface 224308007573 TPR motif; other site 224308007574 TPR repeat; Region: TPR_11; pfam13414 224308007575 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 224308007576 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 224308007577 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 224308007578 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224308007579 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 224308007580 YceG-like family; Region: YceG; pfam02618 224308007581 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14274 224308007582 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 224308007583 Walker A/P-loop; other site 224308007584 ATP binding site [chemical binding]; other site 224308007585 Q-loop/lid; other site 224308007586 ABC transporter signature motif; other site 224308007587 Walker B; other site 224308007588 D-loop; other site 224308007589 H-loop/switch region; other site 224308007590 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14248 224308007591 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 224308007592 Walker A/P-loop; other site 224308007593 ATP binding site [chemical binding]; other site 224308007594 Q-loop/lid; other site 224308007595 ABC transporter signature motif; other site 224308007596 Walker B; other site 224308007597 D-loop; other site 224308007598 H-loop/switch region; other site 224308007599 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 224308007600 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 224308007601 dimer interface [polypeptide binding]; other site 224308007602 conserved gate region; other site 224308007603 ABC-ATPase subunit interface; other site 224308007604 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 224308007605 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 224308007606 dimer interface [polypeptide binding]; other site 224308007607 conserved gate region; other site 224308007608 putative PBP binding loops; other site 224308007609 ABC-ATPase subunit interface; other site 224308007610 PBP superfamily domain; Region: PBP_like_2; cl17296 224308007611 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 224308007612 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 224308007613 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 224308007614 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 224308007615 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 224308007616 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308007617 putative substrate translocation pore; other site 224308007618 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 224308007619 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 224308007620 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 224308007621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 224308007622 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 224308007623 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308007624 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 224308007625 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 224308007626 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 224308007627 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 224308007628 Uncharacterized conserved protein [Function unknown]; Region: COG5663 224308007629 ferric uptake regulator; Provisional; Region: fur; PRK09462 224308007630 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 224308007631 metal binding site 2 [ion binding]; metal-binding site 224308007632 putative DNA binding helix; other site 224308007633 metal binding site 1 [ion binding]; metal-binding site 224308007634 dimer interface [polypeptide binding]; other site 224308007635 structural Zn2+ binding site [ion binding]; other site 224308007636 Uncharacterized conserved protein [Function unknown]; Region: COG1284 224308007637 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224308007638 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224308007639 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 224308007640 Protein of unknown function (DUF2624); Region: DUF2624; pfam11116 224308007641 endonuclease IV; Provisional; Region: PRK01060 224308007642 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 224308007643 AP (apurinic/apyrimidinic) site pocket; other site 224308007644 DNA interaction; other site 224308007645 Metal-binding active site; metal-binding site 224308007646 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 224308007647 DEAD-like helicases superfamily; Region: DEXDc; smart00487 224308007648 ATP binding site [chemical binding]; other site 224308007649 Mg++ binding site [ion binding]; other site 224308007650 motif III; other site 224308007651 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 224308007652 nucleotide binding region [chemical binding]; other site 224308007653 ATP-binding site [chemical binding]; other site 224308007654 YqfQ-like protein; Region: YqfQ; pfam14181 224308007655 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 224308007656 LytB protein; Region: LYTB; pfam02401 224308007657 Uncharacterized conserved protein [Function unknown]; Region: COG0327 224308007658 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 224308007659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 224308007660 Uncharacterized conserved protein [Function unknown]; Region: COG0327 224308007661 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 224308007662 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 224308007663 Family of unknown function (DUF633); Region: DUF633; pfam04816 224308007664 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 224308007665 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 224308007666 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 224308007667 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 224308007668 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 224308007669 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308007670 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 224308007671 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 224308007672 DNA binding residues [nucleotide binding] 224308007673 DNA primase; Validated; Region: dnaG; PRK05667 224308007674 CHC2 zinc finger; Region: zf-CHC2; pfam01807 224308007675 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 224308007676 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 224308007677 active site 224308007678 metal binding site [ion binding]; metal-binding site 224308007679 interdomain interaction site; other site 224308007680 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 224308007681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 224308007682 PEP synthetase regulatory protein; Provisional; Region: PRK05339 224308007683 HTH domain; Region: HTH_11; pfam08279 224308007684 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 224308007685 FOG: CBS domain [General function prediction only]; Region: COG0517 224308007686 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 224308007687 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 224308007688 dimer interface [polypeptide binding]; other site 224308007689 motif 1; other site 224308007690 active site 224308007691 motif 2; other site 224308007692 motif 3; other site 224308007693 Recombination protein O N terminal; Region: RecO_N; pfam11967 224308007694 DNA repair protein RecO; Region: reco; TIGR00613 224308007695 Recombination protein O C terminal; Region: RecO_C; pfam02565 224308007696 YqzL-like protein; Region: YqzL; pfam14006 224308007697 GTPase Era; Reviewed; Region: era; PRK00089 224308007698 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 224308007699 G1 box; other site 224308007700 GTP/Mg2+ binding site [chemical binding]; other site 224308007701 Switch I region; other site 224308007702 G2 box; other site 224308007703 Switch II region; other site 224308007704 G3 box; other site 224308007705 G4 box; other site 224308007706 G5 box; other site 224308007707 KH domain; Region: KH_2; pfam07650 224308007708 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 224308007709 active site 224308007710 catalytic motif [active] 224308007711 Zn binding site [ion binding]; other site 224308007712 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 224308007713 metal-binding heat shock protein; Provisional; Region: PRK00016 224308007714 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 224308007715 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cd12082 224308007716 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 224308007717 Zn2+ binding site [ion binding]; other site 224308007718 Mg2+ binding site [ion binding]; other site 224308007719 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 224308007720 PhoH-like protein; Region: PhoH; pfam02562 224308007721 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 224308007722 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 224308007723 sporulation protein YqfC; Region: spore_yqfC; TIGR02856 224308007724 hypothetical protein; Provisional; Region: PRK13665 224308007725 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 224308007726 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 224308007727 dimer interface [polypeptide binding]; other site 224308007728 active site residues [active] 224308007729 Yqey-like protein; Region: YqeY; pfam09424 224308007730 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 224308007731 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 224308007732 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 224308007733 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 224308007734 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 224308007735 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 224308007736 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 224308007737 FeS/SAM binding site; other site 224308007738 TRAM domain; Region: TRAM; cl01282 224308007739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 224308007740 RNA methyltransferase, RsmE family; Region: TIGR00046 224308007741 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 224308007742 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 224308007743 S-adenosylmethionine binding site [chemical binding]; other site 224308007744 chaperone protein DnaJ; Provisional; Region: PRK14280 224308007745 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 224308007746 HSP70 interaction site [polypeptide binding]; other site 224308007747 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 224308007748 substrate binding site [polypeptide binding]; other site 224308007749 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 224308007750 Zn binding sites [ion binding]; other site 224308007751 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 224308007752 dimer interface [polypeptide binding]; other site 224308007753 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 224308007754 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 224308007755 nucleotide binding site [chemical binding]; other site 224308007756 NEF interaction site [polypeptide binding]; other site 224308007757 SBD interface [polypeptide binding]; other site 224308007758 GrpE; Region: GrpE; pfam01025 224308007759 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 224308007760 dimer interface [polypeptide binding]; other site 224308007761 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 224308007762 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 224308007763 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 224308007764 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 224308007765 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 224308007766 FeS/SAM binding site; other site 224308007767 HemN C-terminal domain; Region: HemN_C; pfam06969 224308007768 GTP-binding protein LepA; Provisional; Region: PRK05433 224308007769 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 224308007770 G1 box; other site 224308007771 putative GEF interaction site [polypeptide binding]; other site 224308007772 GTP/Mg2+ binding site [chemical binding]; other site 224308007773 Switch I region; other site 224308007774 G2 box; other site 224308007775 G3 box; other site 224308007776 Switch II region; other site 224308007777 G4 box; other site 224308007778 G5 box; other site 224308007779 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 224308007780 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 224308007781 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 224308007782 Protein of unknown function (DUF3679); Region: DUF3679; pfam12438 224308007783 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 224308007784 stage II sporulation protein P; Region: spore_II_P; TIGR02867 224308007785 germination protease; Provisional; Region: PRK02858 224308007786 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 224308007787 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 224308007788 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 224308007789 YqzM-like protein; Region: YqzM; pfam14141 224308007790 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 224308007791 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 224308007792 Competence protein; Region: Competence; pfam03772 224308007793 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 224308007794 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 224308007795 catalytic motif [active] 224308007796 Zn binding site [ion binding]; other site 224308007797 SLBB domain; Region: SLBB; pfam10531 224308007798 comEA protein; Region: comE; TIGR01259 224308007799 Helix-hairpin-helix motif; Region: HHH; pfam00633 224308007800 late competence protein ComER; Validated; Region: PRK07680 224308007801 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 224308007802 Methyltransferase domain; Region: Methyltransf_31; pfam13847 224308007803 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 224308007804 S-adenosylmethionine binding site [chemical binding]; other site 224308007805 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 224308007806 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 224308007807 Zn2+ binding site [ion binding]; other site 224308007808 Mg2+ binding site [ion binding]; other site 224308007809 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 224308007810 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 224308007811 active site 224308007812 (T/H)XGH motif; other site 224308007813 putative RNA-binding protein, YhbY family; Region: RNA_bind_YhbY; TIGR00253 224308007814 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 224308007815 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 224308007816 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 224308007817 shikimate binding site; other site 224308007818 NAD(P) binding site [chemical binding]; other site 224308007819 GTPase YqeH; Provisional; Region: PRK13796 224308007820 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 224308007821 GTP/Mg2+ binding site [chemical binding]; other site 224308007822 G4 box; other site 224308007823 G5 box; other site 224308007824 G1 box; other site 224308007825 Switch I region; other site 224308007826 G2 box; other site 224308007827 G3 box; other site 224308007828 Switch II region; other site 224308007829 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 224308007830 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 224308007831 active site 224308007832 motif I; other site 224308007833 motif II; other site 224308007834 Sporulation inhibitor A; Region: Sda; pfam08970 224308007835 GDSL-like Lipase/Acylhydrolase; Region: Lipase_GDSL; pfam00657 224308007836 active site 224308007837 catalytic triad [active] 224308007838 oxyanion hole [active] 224308007839 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 224308007840 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 224308007841 amidase catalytic site [active] 224308007842 Zn binding residues [ion binding]; other site 224308007843 substrate binding site [chemical binding]; other site 224308007844 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 224308007845 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224308007846 Uncharacterized conserved protein [Function unknown]; Region: COG0398 224308007847 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 224308007848 6-phosphogluconate dehydrogenase (decarboxylating); Region: gnd_rel; TIGR00872 224308007849 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 224308007850 arginine decarboxylase; Provisional; Region: PRK15029 224308007851 Deoxyribonuclease NucA/NucB; Region: DNase_NucA_NucB; pfam14040 224308007852 Evidence 1a: Function experimentally demonstrated in the studied strain; PubMedId: 8464402, 7704261, 2536191, 2163341, 15187183, 10974124; Product type r : regulator 224308007853 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 224308007854 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 224308007855 catalytic residues [active] 224308007856 catalytic nucleophile [active] 224308007857 Recombinase; Region: Recombinase; pfam07508 224308007858 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 224308007859 Low molecular weight phosphatase family; Region: LMWPc; cd00115 224308007860 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 224308007861 active site 224308007862 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 224308007863 arsenical-resistance protein; Region: acr3; TIGR00832 224308007864 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 224308007865 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308007866 putative metal binding site [ion binding]; other site 224308007867 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 224308007868 dimerization interface [polypeptide binding]; other site 224308007869 putative DNA binding site [nucleotide binding]; other site 224308007870 putative Zn2+ binding site [ion binding]; other site 224308007871 Uncharacterized conserved protein [Function unknown]; Region: COG3403 224308007872 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 224308007873 binding surface 224308007874 TPR motif; other site 224308007875 Tetratricopeptide repeat; Region: TPR_12; pfam13424 224308007876 Tetratricopeptide repeat; Region: TPR_12; pfam13424 224308007877 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 224308007878 TPR motif; other site 224308007879 binding surface 224308007880 TPR repeat; Region: TPR_11; pfam13414 224308007881 Uncharacterized conserved protein [Function unknown]; Region: COG5444 224308007882 A pre-toxin domain with the TG motif; Region: PT-TG; pfam14449 224308007883 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 224308007884 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 224308007885 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 224308007886 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 224308007887 amidase catalytic site [active] 224308007888 Zn binding residues [ion binding]; other site 224308007889 substrate binding site [chemical binding]; other site 224308007890 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 224308007891 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224308007892 Phage-related holin (Lysis protein) [General function prediction only]; Region: COG4824 224308007893 phage uncharacterized protein, XkdX family; Region: phage_XkdX; TIGR01669 224308007894 XkdW protein; Region: XkdW; pfam09636 224308007895 C1q domain; Region: C1q; cl17543 224308007896 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 224308007897 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 224308007898 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 224308007899 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 224308007900 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 224308007901 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308007902 Phage-related minor tail protein [Function unknown]; Region: COG5280 224308007903 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 224308007904 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224308007905 catalytic residue [active] 224308007906 Evidence 4: Homologs of previously reported genes of unknown function 224308007907 Evidence 4: Homologs of previously reported genes of unknown function; PubMedId: 8760915, 8969508 224308007908 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 224308007909 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 224308007910 Domain of unknown function (DUF3599); Region: DUF3599; pfam12206 224308007911 Putative Head-Tail Connector Protein Yqbg from Bacillus subtilis and similar proteins; Region: Yqbg; cd08053 224308007912 Phage capsid family; Region: Phage_capsid; pfam05065 224308007913 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 224308007914 Bacteriophage capsid portal protein [General function prediction only]; Region: COG5518 224308007915 Phage terminase large subunit [General function prediction only]; Region: XtmB; COG1783 224308007916 Terminase-like family; Region: Terminase_6; pfam03237 224308007917 Uncharacterized conserved protein [Function unknown]; Region: COG5484 224308007918 Helix-turn-helix domain; Region: HTH_28; pfam13518 224308007919 Homeodomain-like domain; Region: HTH_23; cl17451 224308007920 Holliday junction resolvase [DNA replication, recombination, and repair]; Region: Rus; COG4570 224308007921 hypothetical protein; Provisional; Region: PRK06921 224308007922 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 224308007923 Walker A motif; other site 224308007924 ATP binding site [chemical binding]; other site 224308007925 Walker B motif; other site 224308007926 arginine finger; other site 224308007927 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 224308007928 Recombinational DNA repair protein (RecE pathway) [DNA replication, recombination, and repair]; Region: RecT; COG3723 224308007929 Phage-related protein, predicted endonuclease [DNA replication, recombination, and repair]; Region: COG5377 224308007930 Hypothetical protein Yqai; Region: Yqai; pfam09466 224308007931 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 224308007932 non-specific DNA binding site [nucleotide binding]; other site 224308007933 salt bridge; other site 224308007934 sequence-specific DNA binding site [nucleotide binding]; other site 224308007935 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224308007936 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 224308007937 non-specific DNA binding site [nucleotide binding]; other site 224308007938 salt bridge; other site 224308007939 sequence-specific DNA binding site [nucleotide binding]; other site 224308007940 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224308007941 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 224308007942 non-specific DNA binding site [nucleotide binding]; other site 224308007943 salt bridge; other site 224308007944 sequence-specific DNA binding site [nucleotide binding]; other site 224308007945 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 224308007946 hypothetical protein; Validated; Region: PRK06217 224308007947 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 224308007948 Domain of unknown function (DUF955); Region: DUF955; pfam06114 224308007949 Evidence 1a: Function experimentally demonstrated in the studied strain; PubMedId: 2163341, 7704261, 8969508; Product type f: factor 224308007950 Predicted membrane protein [Function unknown]; Region: COG3223 224308007951 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224308007952 HAMP domain; Region: HAMP; pfam00672 224308007953 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 224308007954 dimer interface [polypeptide binding]; other site 224308007955 phosphorylation site [posttranslational modification] 224308007956 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 224308007957 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 224308007958 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 224308007959 active site 224308007960 phosphorylation site [posttranslational modification] 224308007961 intermolecular recognition site; other site 224308007962 dimerization interface [polypeptide binding]; other site 224308007963 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 224308007964 DNA binding site [nucleotide binding] 224308007965 Predicted membrane protein [Function unknown]; Region: COG2311 224308007966 Protein of unknown function (DUF418); Region: DUF418; cl12135 224308007967 Protein of unknown function (DUF418); Region: DUF418; pfam04235 224308007968 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308007969 Coenzyme A binding pocket [chemical binding]; other site 224308007970 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 224308007971 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 224308007972 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 224308007973 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 224308007974 CPxP motif; other site 224308007975 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 224308007976 active site residue [active] 224308007977 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 224308007978 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 224308007979 CPxP motif; other site 224308007980 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 224308007981 active site residue [active] 224308007982 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 224308007983 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 224308007984 putative homodimer interface [polypeptide binding]; other site 224308007985 putative homotetramer interface [polypeptide binding]; other site 224308007986 putative allosteric switch controlling residues; other site 224308007987 putative metal binding site [ion binding]; other site 224308007988 putative homodimer-homodimer interface [polypeptide binding]; other site 224308007989 Evidence 4: Homologs of previously reported genes of unknown function 224308007990 Evidence 5: No homology to any previously reported sequences 224308007991 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 224308007992 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 224308007993 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 224308007994 DNA binding residues [nucleotide binding] 224308007995 dimer interface [polypeptide binding]; other site 224308007996 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 224308007997 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 224308007998 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308007999 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 224308008000 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 224308008001 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 224308008002 Coenzyme A binding pocket [chemical binding]; other site 224308008003 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 224308008004 Domain of unknown function DUF21; Region: DUF21; pfam01595 224308008005 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 224308008006 Transporter associated domain; Region: CorC_HlyC; smart01091 224308008007 YrzO-like protein; Region: YrzO; pfam14142 224308008008 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224308008009 EamA-like transporter family; Region: EamA; pfam00892 224308008010 EamA-like transporter family; Region: EamA; pfam00892 224308008011 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308008012 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308008013 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 224308008014 putative dimerization interface [polypeptide binding]; other site 224308008015 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 224308008016 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 224308008017 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 224308008018 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 224308008019 Tautomerase enzyme; Region: Tautomerase; pfam01361 224308008020 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308008021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308008022 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 224308008023 putative dimerization interface [polypeptide binding]; other site 224308008024 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 224308008025 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 224308008026 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 224308008027 4-azaleucine resistance probable transporter AzlC; Region: azlC; TIGR00346 224308008028 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 224308008029 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 224308008030 putative DNA binding site [nucleotide binding]; other site 224308008031 putative Zn2+ binding site [ion binding]; other site 224308008032 AsnC family; Region: AsnC_trans_reg; pfam01037 224308008033 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 224308008034 RNAase interaction site [polypeptide binding]; other site 224308008035 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 224308008036 Cytochrome P450; Region: p450; cl12078 224308008037 Evidence 4: Homologs of previously reported genes of unknown function 224308008038 Evidence 4: Homologs of previously reported genes of unknown function 224308008039 Evidence 4: Homologs of previously reported genes of unknown function 224308008040 Isochorismatase family; Region: Isochorismatase; pfam00857 224308008041 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 224308008042 catalytic triad [active] 224308008043 conserved cis-peptide bond; other site 224308008044 Protein of unknown function (DUF2568); Region: DUF2568; pfam10823 224308008045 DinB family; Region: DinB; pfam05163 224308008046 DinB superfamily; Region: DinB_2; pfam12867 224308008047 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 224308008048 Nitronate monooxygenase; Region: NMO; pfam03060 224308008049 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 224308008050 FMN binding site [chemical binding]; other site 224308008051 substrate binding site [chemical binding]; other site 224308008052 putative catalytic residue [active] 224308008053 glutamate racemase; Region: glut_race; TIGR00067 224308008054 Uncharacterized proteins similar to Bacillus subtilis YncM; Region: YncM_like; cd13427 224308008055 putative binding site; other site 224308008056 putative dimer interface [polypeptide binding]; other site 224308008057 YodA lipocalin-like domain; Region: YodA; pfam09223 224308008058 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 224308008059 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308008060 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 224308008061 DNA binding residues [nucleotide binding] 224308008062 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 224308008063 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 224308008064 active site 224308008065 catalytic tetrad [active] 224308008066 citrate transporter, CitMHS family; Region: citMHS; TIGR00784 224308008067 Citrate transporter; Region: CitMHS; pfam03600 224308008068 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308008069 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308008070 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 224308008071 dimerization interface [polypeptide binding]; other site 224308008072 PrpF protein; Region: PrpF; pfam04303 224308008073 Glycosyl hydrolase family 46 chitosanase domain. This family are composed of the chitosanase enzymes which hydrolyzes chitosan, a biopolymer of beta (1,4)-linked -D-glucosamine (GlcN) residues produced by partial or full deacetylation of chitin; Region: chitosanase_glyco_hydro_46; cd00978 224308008074 chitosan binding site [chemical binding]; other site 224308008075 catalytic residues [active] 224308008076 Mor transcription activator family; Region: Mor; cl02360 224308008077 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 224308008078 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 224308008079 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 224308008080 Bacterial SH3 domain homologues; Region: SH3b; smart00287 224308008081 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 224308008082 Bacterial SH3 domain homologues; Region: SH3b; smart00287 224308008083 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308008084 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 224308008085 active site 224308008086 metal binding site [ion binding]; metal-binding site 224308008087 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 224308008088 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 224308008089 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 224308008090 NAD binding site [chemical binding]; other site 224308008091 catalytic Zn binding site [ion binding]; other site 224308008092 structural Zn binding site [ion binding]; other site 224308008093 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 224308008094 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 224308008095 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 224308008096 DNA binding residues [nucleotide binding] 224308008097 putative dimer interface [polypeptide binding]; other site 224308008098 Evidence 5: No homology to any previously reported sequences 224308008099 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 224308008100 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 224308008101 putative NAD(P) binding site [chemical binding]; other site 224308008102 putative substrate binding site [chemical binding]; other site 224308008103 catalytic Zn binding site [ion binding]; other site 224308008104 structural Zn binding site [ion binding]; other site 224308008105 dimer interface [polypeptide binding]; other site 224308008106 intracellular protease, PfpI family; Region: PfpI; TIGR01382 224308008107 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 224308008108 proposed catalytic triad [active] 224308008109 conserved cys residue [active] 224308008110 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 224308008111 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 224308008112 substrate binding [chemical binding]; other site 224308008113 active site 224308008114 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 224308008115 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 224308008116 PTS system, mannose/fructose/sorbose family, IID component; Region: EIID-AGA; TIGR00828 224308008117 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 224308008118 PTS_IIB, PTS system, Mannose/sorbose 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_man; cd00001 224308008119 active site 224308008120 phosphorylation site [posttranslational modification] 224308008121 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 224308008122 active pocket/dimerization site; other site 224308008123 active site 224308008124 phosphorylation site [posttranslational modification] 224308008125 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 224308008126 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 224308008127 Walker A motif; other site 224308008128 ATP binding site [chemical binding]; other site 224308008129 Walker B motif; other site 224308008130 arginine finger; other site 224308008131 Transcriptional antiterminator [Transcription]; Region: COG3933 224308008132 PRD domain; Region: PRD; pfam00874 224308008133 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 224308008134 active pocket/dimerization site; other site 224308008135 active site 224308008136 phosphorylation site [posttranslational modification] 224308008137 PRD domain; Region: PRD; pfam00874 224308008138 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 224308008139 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 224308008140 Predicted transcriptional regulators [Transcription]; Region: COG1378 224308008141 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 224308008142 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 224308008143 C-terminal domain interface [polypeptide binding]; other site 224308008144 sugar binding site [chemical binding]; other site 224308008145 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 224308008146 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308008147 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 224308008148 DNA binding residues [nucleotide binding] 224308008149 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 224308008150 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 224308008151 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 224308008152 yrhL-like subfamily of SGNH-hydrolases, 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_yrhL_like; cd01840 224308008153 catalytic triad [active] 224308008154 catalytic triad [active] 224308008155 oxyanion hole [active] 224308008156 YrhK-like protein; Region: YrhK; pfam14145 224308008157 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 224308008158 Cytochrome P450; Region: p450; pfam00067 224308008159 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 224308008160 Flavodoxin; Region: Flavodoxin_1; pfam00258 224308008161 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 224308008162 FAD binding pocket [chemical binding]; other site 224308008163 FAD binding motif [chemical binding]; other site 224308008164 catalytic residues [active] 224308008165 NAD binding pocket [chemical binding]; other site 224308008166 phosphate binding motif [ion binding]; other site 224308008167 beta-alpha-beta structure motif; other site 224308008168 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308008169 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308008170 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 224308008171 S-adenosylmethionine binding site [chemical binding]; other site 224308008172 Probable sporulation protein (Bac_small_yrzI); Region: Bac_small_YrzI; pfam09501 224308008173 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 224308008174 Uncharacterized conserved protein [Function unknown]; Region: COG5609 224308008175 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 224308008176 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 224308008177 catalytic loop [active] 224308008178 iron binding site [ion binding]; other site 224308008179 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 224308008180 4Fe-4S binding domain; Region: Fer4; pfam00037 224308008181 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 224308008182 [4Fe-4S] binding site [ion binding]; other site 224308008183 molybdopterin cofactor binding site; other site 224308008184 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 224308008185 molybdopterin cofactor binding site; other site 224308008186 Uncharacterized conserved protein [Function unknown]; Region: COG2427 224308008187 YrhC-like protein; Region: YrhC; pfam14143 224308008188 cystathionine beta-lyase; Provisional; Region: PRK07671 224308008189 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 224308008190 homodimer interface [polypeptide binding]; other site 224308008191 substrate-cofactor binding pocket; other site 224308008192 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308008193 catalytic residue [active] 224308008194 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 224308008195 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 224308008196 dimer interface [polypeptide binding]; other site 224308008197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308008198 catalytic residue [active] 224308008199 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 224308008200 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 224308008201 Methyltransferase domain; Region: Methyltransf_23; pfam13489 224308008202 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 224308008203 S-adenosylmethionine binding site [chemical binding]; other site 224308008204 Protein of unknown function (DUF2536); Region: DUF2536; pfam10750 224308008205 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 224308008206 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 224308008207 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 224308008208 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 224308008209 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 224308008210 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 224308008211 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 224308008212 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 224308008213 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 224308008214 ATP-binding site [chemical binding]; other site 224308008215 Sugar specificity; other site 224308008216 Pyrimidine base specificity; other site 224308008217 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 224308008218 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 224308008219 Peptidase family U32; Region: Peptidase_U32; pfam01136 224308008220 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 224308008221 Peptidase family U32; Region: Peptidase_U32; pfam01136 224308008222 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 224308008223 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 224308008224 S-adenosylmethionine binding site [chemical binding]; other site 224308008225 conserved hypothetical protein, YceG family; Region: TIGR00247 224308008226 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 224308008227 dimerization interface [polypeptide binding]; other site 224308008228 hypothetical protein; Provisional; Region: PRK13678 224308008229 RNAse H-fold protein YqgF; Region: RNAse_H_YqgF; TIGR00250 224308008230 hypothetical protein; Provisional; Region: PRK05473 224308008231 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 224308008232 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 224308008233 motif 1; other site 224308008234 active site 224308008235 motif 2; other site 224308008236 motif 3; other site 224308008237 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 224308008238 DHHA1 domain; Region: DHHA1; pfam02272 224308008239 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 224308008240 Domain of unknown function DUF20; Region: UPF0118; pfam01594 224308008241 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 224308008242 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 224308008243 Walker A/P-loop; other site 224308008244 ATP binding site [chemical binding]; other site 224308008245 Q-loop/lid; other site 224308008246 ABC transporter signature motif; other site 224308008247 Walker B; other site 224308008248 D-loop; other site 224308008249 H-loop/switch region; other site 224308008250 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 224308008251 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 224308008252 substrate binding pocket [chemical binding]; other site 224308008253 membrane-bound complex binding site; other site 224308008254 hinge residues; other site 224308008255 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 224308008256 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 224308008257 dimer interface [polypeptide binding]; other site 224308008258 conserved gate region; other site 224308008259 putative PBP binding loops; other site 224308008260 ABC-ATPase subunit interface; other site 224308008261 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 224308008262 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 224308008263 dimer interface [polypeptide binding]; other site 224308008264 ABC-ATPase subunit interface; other site 224308008265 putative PBP binding loops; other site 224308008266 Protein of unknown function (DUF3918); Region: DUF3918; pfam13056 224308008267 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 224308008268 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 224308008269 AAA domain; Region: AAA_30; pfam13604 224308008270 Family description; Region: UvrD_C_2; pfam13538 224308008271 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 224308008272 TPR motif; other site 224308008273 TPR repeat; Region: TPR_11; pfam13414 224308008274 binding surface 224308008275 TPR repeat; Region: TPR_11; pfam13414 224308008276 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 224308008277 binding surface 224308008278 TPR motif; other site 224308008279 TPR repeat; Region: TPR_11; pfam13414 224308008280 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 224308008281 binding surface 224308008282 TPR motif; other site 224308008283 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 224308008284 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 224308008285 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 224308008286 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 224308008287 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224308008288 catalytic residue [active] 224308008289 Predicted transcriptional regulator [Transcription]; Region: COG1959 224308008290 Transcriptional regulator; Region: Rrf2; pfam02082 224308008291 recombination factor protein RarA; Reviewed; Region: PRK13342 224308008292 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 224308008293 Walker A motif; other site 224308008294 ATP binding site [chemical binding]; other site 224308008295 Walker B motif; other site 224308008296 arginine finger; other site 224308008297 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 224308008298 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 224308008299 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 224308008300 putative ATP binding site [chemical binding]; other site 224308008301 putative substrate interface [chemical binding]; other site 224308008302 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 224308008303 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 224308008304 dimer interface [polypeptide binding]; other site 224308008305 anticodon binding site; other site 224308008306 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 224308008307 homodimer interface [polypeptide binding]; other site 224308008308 motif 1; other site 224308008309 active site 224308008310 motif 2; other site 224308008311 GAD domain; Region: GAD; pfam02938 224308008312 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 224308008313 motif 3; other site 224308008314 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 224308008315 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 224308008316 dimer interface [polypeptide binding]; other site 224308008317 motif 1; other site 224308008318 active site 224308008319 motif 2; other site 224308008320 motif 3; other site 224308008321 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 224308008322 anticodon binding site; other site 224308008323 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 224308008324 Bacterial SH3 domain homologues; Region: SH3b; smart00287 224308008325 Bacterial SH3 domain; Region: SH3_3; pfam08239 224308008326 Bacterial SH3 domain; Region: SH3_3; pfam08239 224308008327 Bacterial SH3 domain homologues; Region: SH3b; smart00287 224308008328 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 224308008329 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 224308008330 active site 224308008331 metal binding site [ion binding]; metal-binding site 224308008332 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 224308008333 dimerization interface [polypeptide binding]; other site 224308008334 putative tRNAtyr binding site [nucleotide binding]; other site 224308008335 putative active site [active] 224308008336 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 224308008337 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 224308008338 Zn2+ binding site [ion binding]; other site 224308008339 Mg2+ binding site [ion binding]; other site 224308008340 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 224308008341 synthetase active site [active] 224308008342 NTP binding site [chemical binding]; other site 224308008343 metal binding site [ion binding]; metal-binding site 224308008344 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 224308008345 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 224308008346 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224308008347 active site 224308008348 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 224308008349 DHH family; Region: DHH; pfam01368 224308008350 DHHA1 domain; Region: DHHA1; pfam02272 224308008351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4199 224308008352 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 224308008353 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 224308008354 TrkA-C domain; Region: TrkA_C; pfam02080 224308008355 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 224308008356 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 224308008357 Protein export membrane protein; Region: SecD_SecF; pfam02355 224308008358 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 224308008359 stage V sporulation protein B; Region: spore_V_B; TIGR02900 224308008360 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 224308008361 Predicted membrane protein [Function unknown]; Region: COG2323 224308008362 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 224308008363 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 224308008364 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 224308008365 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 224308008366 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 224308008367 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 224308008368 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 224308008369 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 224308008370 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 224308008371 Walker A motif; other site 224308008372 ATP binding site [chemical binding]; other site 224308008373 Walker B motif; other site 224308008374 arginine finger; other site 224308008375 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 224308008376 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 224308008377 RuvA N terminal domain; Region: RuvA_N; pfam01330 224308008378 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 224308008379 Bypass of Forespore C, N terminal; Region: BOFC_N; pfam08977 224308008380 BofC C-terminal domain; Region: BofC_C; pfam08955 224308008381 polyol permease family; Region: 2A0118; TIGR00897 224308008382 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 224308008383 putative substrate translocation pore; other site 224308008384 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224308008385 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224308008386 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224308008387 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 224308008388 active site 224308008389 substrate binding site [chemical binding]; other site 224308008390 ATP binding site [chemical binding]; other site 224308008391 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 224308008392 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 224308008393 hypothetical protein; Validated; Region: PRK00110 224308008394 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 224308008395 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308008396 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 224308008397 quinolinate synthetase complex, A subunit; Region: nadA; TIGR00550 224308008398 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK08072 224308008399 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 224308008400 dimerization interface [polypeptide binding]; other site 224308008401 active site 224308008402 L-aspartate oxidase; Provisional; Region: PRK08071 224308008403 L-aspartate oxidase; Provisional; Region: PRK06175 224308008404 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 224308008405 cysteine desulfurase; Provisional; Region: PRK02948 224308008406 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 224308008407 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224308008408 catalytic residue [active] 224308008409 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 224308008410 HTH domain; Region: HTH_11; pfam08279 224308008411 3H domain; Region: 3H; pfam02829 224308008412 prephenate dehydratase; Provisional; Region: PRK11898 224308008413 Prephenate dehydratase; Region: PDT; pfam00800 224308008414 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 224308008415 putative L-Phe binding site [chemical binding]; other site 224308008416 hypothetical protein; Provisional; Region: PRK04435 224308008417 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 224308008418 GTPase CgtA; Reviewed; Region: obgE; PRK12297 224308008419 GTP1/OBG; Region: GTP1_OBG; pfam01018 224308008420 Obg GTPase; Region: Obg; cd01898 224308008421 G1 box; other site 224308008422 GTP/Mg2+ binding site [chemical binding]; other site 224308008423 Switch I region; other site 224308008424 G2 box; other site 224308008425 G3 box; other site 224308008426 Switch II region; other site 224308008427 G4 box; other site 224308008428 G5 box; other site 224308008429 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 224308008430 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 224308008431 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 224308008432 hypothetical protein; Provisional; Region: PRK14553 224308008433 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 224308008434 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 224308008435 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 224308008436 active site 224308008437 Peptidase family M50; Region: Peptidase_M50; pfam02163 224308008438 putative substrate binding region [chemical binding]; other site 224308008439 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 224308008440 Peptidase family M23; Region: Peptidase_M23; pfam01551 224308008441 septum site-determining protein MinD; Region: minD_bact; TIGR01968 224308008442 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 224308008443 Switch I; other site 224308008444 Switch II; other site 224308008445 septum formation inhibitor; Reviewed; Region: minC; PRK00513 224308008446 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 224308008447 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 224308008448 rod shape-determining protein MreC; Region: mreC; TIGR00219 224308008449 rod shape-determining protein MreC; Region: MreC; pfam04085 224308008450 rod shape-determining protein MreB; Provisional; Region: PRK13927 224308008451 MreB and similar proteins; Region: MreB_like; cd10225 224308008452 nucleotide binding site [chemical binding]; other site 224308008453 Mg binding site [ion binding]; other site 224308008454 putative protofilament interaction site [polypeptide binding]; other site 224308008455 RodZ interaction site [polypeptide binding]; other site 224308008456 hypothetical protein; Reviewed; Region: PRK00024 224308008457 Helix-hairpin-helix motif; Region: HHH; pfam00633 224308008458 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 224308008459 MPN+ (JAMM) motif; other site 224308008460 Zinc-binding site [ion binding]; other site 224308008461 Maf-like protein; Region: Maf; pfam02545 224308008462 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 224308008463 active site 224308008464 dimer interface [polypeptide binding]; other site 224308008465 Sporulation related domain; Region: SPOR; pfam05036 224308008466 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 224308008467 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 224308008468 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 224308008469 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 224308008470 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 224308008471 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 224308008472 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 224308008473 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 224308008474 active site 224308008475 HIGH motif; other site 224308008476 nucleotide binding site [chemical binding]; other site 224308008477 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 224308008478 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 224308008479 active site 224308008480 KMSKS motif; other site 224308008481 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 224308008482 tRNA binding surface [nucleotide binding]; other site 224308008483 anticodon binding site; other site 224308008484 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 224308008485 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 224308008486 stage VI sporulation protein D; Region: spore_VI_D; TIGR02907 224308008487 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224308008488 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 224308008489 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 224308008490 inhibitor-cofactor binding pocket; inhibition site 224308008491 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308008492 catalytic residue [active] 224308008493 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 224308008494 dimer interface [polypeptide binding]; other site 224308008495 active site 224308008496 Schiff base residues; other site 224308008497 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 224308008498 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 224308008499 active site 224308008500 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 224308008501 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 224308008502 domain interfaces; other site 224308008503 active site 224308008504 Cytochrome C assembly protein; Region: Cytochrom_C_asm; pfam01578 224308008505 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 224308008506 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 224308008507 tRNA; other site 224308008508 putative tRNA binding site [nucleotide binding]; other site 224308008509 putative NADP binding site [chemical binding]; other site 224308008510 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 224308008511 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 224308008512 G1 box; other site 224308008513 GTP/Mg2+ binding site [chemical binding]; other site 224308008514 Switch I region; other site 224308008515 G2 box; other site 224308008516 G3 box; other site 224308008517 Switch II region; other site 224308008518 G4 box; other site 224308008519 G5 box; other site 224308008520 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 224308008521 Found in ATP-dependent protease La (LON); Region: LON; smart00464 224308008522 Found in ATP-dependent protease La (LON); Region: LON; smart00464 224308008523 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 224308008524 Walker A motif; other site 224308008525 ATP binding site [chemical binding]; other site 224308008526 Walker B motif; other site 224308008527 arginine finger; other site 224308008528 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 224308008529 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 224308008530 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 224308008531 Walker A motif; other site 224308008532 ATP binding site [chemical binding]; other site 224308008533 Walker B motif; other site 224308008534 arginine finger; other site 224308008535 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 224308008536 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 224308008537 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 224308008538 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 224308008539 Walker A motif; other site 224308008540 ATP binding site [chemical binding]; other site 224308008541 Walker B motif; other site 224308008542 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 224308008543 trigger factor; Provisional; Region: tig; PRK01490 224308008544 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 224308008545 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 224308008546 TPR repeat; Region: TPR_11; pfam13414 224308008547 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 224308008548 binding surface 224308008549 TPR motif; other site 224308008550 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 224308008551 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 224308008552 substrate binding site [chemical binding]; other site 224308008553 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 224308008554 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 224308008555 substrate binding site [chemical binding]; other site 224308008556 ligand binding site [chemical binding]; other site 224308008557 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 224308008558 tartrate dehydrogenase; Region: TTC; TIGR02089 224308008559 2-isopropylmalate synthase; Validated; Region: PRK00915 224308008560 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 224308008561 active site 224308008562 catalytic residues [active] 224308008563 metal binding site [ion binding]; metal-binding site 224308008564 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 224308008565 ketol-acid reductoisomerase; Provisional; Region: PRK05479 224308008566 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 224308008567 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 224308008568 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 224308008569 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 224308008570 putative valine binding site [chemical binding]; other site 224308008571 dimer interface [polypeptide binding]; other site 224308008572 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 224308008573 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 224308008574 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 224308008575 PYR/PP interface [polypeptide binding]; other site 224308008576 dimer interface [polypeptide binding]; other site 224308008577 TPP binding site [chemical binding]; other site 224308008578 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 224308008579 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 224308008580 TPP-binding site [chemical binding]; other site 224308008581 dimer interface [polypeptide binding]; other site 224308008582 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 224308008583 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308008584 Coenzyme A binding pocket [chemical binding]; other site 224308008585 Heat induced stress protein YflT; Region: YflT; pfam11181 224308008586 conserved domain; Region: TIGR02271 224308008587 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 224308008588 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 224308008589 active site 224308008590 metal binding site [ion binding]; metal-binding site 224308008591 homotetramer interface [polypeptide binding]; other site 224308008592 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 224308008593 active site 224308008594 dimerization interface [polypeptide binding]; other site 224308008595 ribonuclease PH; Reviewed; Region: rph; PRK00173 224308008596 Ribonuclease PH; Region: RNase_PH_bact; cd11362 224308008597 hexamer interface [polypeptide binding]; other site 224308008598 active site 224308008599 Spore germination protein [General function prediction only]; Region: COG5401 224308008600 Sporulation and spore germination; Region: Germane; pfam10646 224308008601 Sporulation and spore germination; Region: Germane; pfam10646 224308008602 glutamate racemase; Region: glut_race; TIGR00067 224308008603 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308008604 MarR family; Region: MarR; pfam01047 224308008605 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 224308008606 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 224308008607 DNA binding residues [nucleotide binding] 224308008608 dimerization interface [polypeptide binding]; other site 224308008609 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 224308008610 active site 224308008611 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 224308008612 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 224308008613 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 224308008614 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 224308008615 L-aspartate oxidase; Provisional; Region: PRK06175 224308008616 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 224308008617 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 224308008618 putative Iron-sulfur protein interface [polypeptide binding]; other site 224308008619 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 224308008620 proximal heme binding site [chemical binding]; other site 224308008621 distal heme binding site [chemical binding]; other site 224308008622 putative dimer interface [polypeptide binding]; other site 224308008623 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 224308008624 aspartate kinase; Reviewed; Region: PRK06635 224308008625 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 224308008626 putative nucleotide binding site [chemical binding]; other site 224308008627 putative catalytic residues [active] 224308008628 putative Mg ion binding site [ion binding]; other site 224308008629 putative aspartate binding site [chemical binding]; other site 224308008630 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 224308008631 putative allosteric regulatory site; other site 224308008632 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 224308008633 putative allosteric regulatory residue; other site 224308008634 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 224308008635 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 224308008636 GIY-YIG motif/motif A; other site 224308008637 active site 224308008638 catalytic site [active] 224308008639 putative DNA binding site [nucleotide binding]; other site 224308008640 metal binding site [ion binding]; metal-binding site 224308008641 UvrB/uvrC motif; Region: UVR; pfam02151 224308008642 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 224308008643 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 224308008644 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 224308008645 catalytic residues [active] 224308008646 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 224308008647 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 224308008648 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 224308008649 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 224308008650 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 224308008651 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 224308008652 Ligand binding site [chemical binding]; other site 224308008653 Electron transfer flavoprotein domain; Region: ETF; pfam01012 224308008654 enoyl-CoA hydratase; Provisional; Region: PRK07658 224308008655 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 224308008656 substrate binding site [chemical binding]; other site 224308008657 oxyanion hole (OAH) forming residues; other site 224308008658 trimer interface [polypeptide binding]; other site 224308008659 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308008660 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308008661 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 224308008662 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 224308008663 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 224308008664 acyl-activating enzyme (AAE) consensus motif; other site 224308008665 putative AMP binding site [chemical binding]; other site 224308008666 putative active site [active] 224308008667 putative CoA binding site [chemical binding]; other site 224308008668 Predicted membrane protein [Function unknown]; Region: COG3766 224308008669 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 224308008670 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 224308008671 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 224308008672 MutS domain III; Region: MutS_III; pfam05192 224308008673 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 224308008674 Walker A/P-loop; other site 224308008675 ATP binding site [chemical binding]; other site 224308008676 Q-loop/lid; other site 224308008677 ABC transporter signature motif; other site 224308008678 Walker B; other site 224308008679 D-loop; other site 224308008680 H-loop/switch region; other site 224308008681 Smr domain; Region: Smr; pfam01713 224308008682 hypothetical protein; Provisional; Region: PRK08609 224308008683 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 224308008684 active site 224308008685 primer binding site [nucleotide binding]; other site 224308008686 NTP binding site [chemical binding]; other site 224308008687 metal binding triad [ion binding]; metal-binding site 224308008688 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 224308008689 active site 224308008690 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 224308008691 Colicin V production protein; Region: Colicin_V; pfam02674 224308008692 cell division protein ZapA; Provisional; Region: PRK14126 224308008693 ribonuclease HIII; Provisional; Region: PRK00996 224308008694 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 224308008695 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 224308008696 RNA/DNA hybrid binding site [nucleotide binding]; other site 224308008697 active site 224308008698 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 224308008699 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 224308008700 putative tRNA-binding site [nucleotide binding]; other site 224308008701 B3/4 domain; Region: B3_4; pfam03483 224308008702 tRNA synthetase B5 domain; Region: B5; smart00874 224308008703 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 224308008704 dimer interface [polypeptide binding]; other site 224308008705 motif 1; other site 224308008706 motif 3; other site 224308008707 motif 2; other site 224308008708 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 224308008709 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 224308008710 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 224308008711 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 224308008712 dimer interface [polypeptide binding]; other site 224308008713 motif 1; other site 224308008714 active site 224308008715 motif 2; other site 224308008716 motif 3; other site 224308008717 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 224308008718 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 224308008719 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 224308008720 small acid-soluble spore protein SspI; Provisional; Region: PRK02955 224308008721 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 224308008722 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 224308008723 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 224308008724 FAD binding domain; Region: FAD_binding_4; pfam01565 224308008725 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 224308008726 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 224308008727 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 224308008728 Cysteine-rich domain; Region: CCG; pfam02754 224308008729 Cysteine-rich domain; Region: CCG; pfam02754 224308008730 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 224308008731 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308008732 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 224308008733 Carbon starvation protein CstA; Region: CstA; pfam02554 224308008734 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 224308008735 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 224308008736 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 224308008737 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224308008738 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 224308008739 putative PBP binding loops; other site 224308008740 dimer interface [polypeptide binding]; other site 224308008741 ABC-ATPase subunit interface; other site 224308008742 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 224308008743 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 224308008744 dimer interface [polypeptide binding]; other site 224308008745 conserved gate region; other site 224308008746 putative PBP binding loops; other site 224308008747 ABC-ATPase subunit interface; other site 224308008748 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 224308008749 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 224308008750 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 224308008751 Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner; Region: G1PDH; cd08175 224308008752 active site 224308008753 metal binding site [ion binding]; metal-binding site 224308008754 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 224308008755 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 224308008756 active site 224308008757 motif I; other site 224308008758 motif II; other site 224308008759 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 224308008760 motif II; other site 224308008761 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 224308008762 L-ribulose-5-phosphate 4-epimerase; Region: araD; TIGR00760 224308008763 intersubunit interface [polypeptide binding]; other site 224308008764 active site 224308008765 Zn2+ binding site [ion binding]; other site 224308008766 L-ribulokinase; Region: L-ribulokinase; TIGR01234 224308008767 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 224308008768 N- and C-terminal domain interface [polypeptide binding]; other site 224308008769 active site 224308008770 MgATP binding site [chemical binding]; other site 224308008771 catalytic site [active] 224308008772 metal binding site [ion binding]; metal-binding site 224308008773 carbohydrate binding site [chemical binding]; other site 224308008774 homodimer interface [polypeptide binding]; other site 224308008775 L-arabinose isomerase; Provisional; Region: PRK02929 224308008776 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 224308008777 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 224308008778 trimer interface [polypeptide binding]; other site 224308008779 putative substrate binding site [chemical binding]; other site 224308008780 putative metal binding site [ion binding]; other site 224308008781 Glycosyl hydrolase family 43; Region: GH43_ABN; cd08988 224308008782 substrate binding site [chemical binding]; other site 224308008783 active site 224308008784 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 224308008785 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 224308008786 oligomer interface [polypeptide binding]; other site 224308008787 active site 224308008788 metal binding site [ion binding]; metal-binding site 224308008789 Predicted membrane protein [Function unknown]; Region: COG3326 224308008790 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 224308008791 23S rRNA binding site [nucleotide binding]; other site 224308008792 L21 binding site [polypeptide binding]; other site 224308008793 L13 binding site [polypeptide binding]; other site 224308008794 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 224308008795 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 224308008796 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 224308008797 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 224308008798 antiholin-like protein LrgB; Provisional; Region: PRK04288 224308008799 murein hydrolase regulator LrgA; Provisional; Region: PRK04125 224308008800 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 224308008801 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 224308008802 active site 224308008803 phosphorylation site [posttranslational modification] 224308008804 intermolecular recognition site; other site 224308008805 dimerization interface [polypeptide binding]; other site 224308008806 LytTr DNA-binding domain; Region: LytTR; pfam04397 224308008807 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 224308008808 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 224308008809 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 224308008810 Histidine kinase; Region: His_kinase; pfam06580 224308008811 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 224308008812 ATP binding site [chemical binding]; other site 224308008813 Mg2+ binding site [ion binding]; other site 224308008814 G-X-G motif; other site 224308008815 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 224308008816 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 224308008817 motif II; other site 224308008818 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 224308008819 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 224308008820 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 224308008821 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 224308008822 active site 224308008823 dimer interface [polypeptide binding]; other site 224308008824 motif 1; other site 224308008825 motif 2; other site 224308008826 motif 3; other site 224308008827 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 224308008828 anticodon binding site; other site 224308008829 putative sporulation protein YtxC; Region: spo_ytxC; TIGR02834 224308008830 Uncharacterized conserved protein [Function unknown]; Region: COG0398 224308008831 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 224308008832 primosomal protein DnaI; Reviewed; Region: PRK08939 224308008833 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 224308008834 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 224308008835 Walker A motif; other site 224308008836 ATP binding site [chemical binding]; other site 224308008837 Walker B motif; other site 224308008838 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 224308008839 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 224308008840 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 224308008841 ATP cone domain; Region: ATP-cone; pfam03477 224308008842 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 224308008843 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 224308008844 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 224308008845 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 224308008846 Predicted transcriptional regulators [Transcription]; Region: COG1733 224308008847 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 224308008848 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 224308008849 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 224308008850 putative substrate translocation pore; other site 224308008851 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 224308008852 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 224308008853 active site 224308008854 catalytic tetrad [active] 224308008855 dephospho-CoA kinase; Region: TIGR00152 224308008856 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 224308008857 CoA-binding site [chemical binding]; other site 224308008858 ATP-binding [chemical binding]; other site 224308008859 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 224308008860 Domain of unknown function DUF; Region: DUF204; pfam02659 224308008861 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 224308008862 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 224308008863 DNA binding site [nucleotide binding] 224308008864 catalytic residue [active] 224308008865 H2TH interface [polypeptide binding]; other site 224308008866 putative catalytic residues [active] 224308008867 turnover-facilitating residue; other site 224308008868 intercalation triad [nucleotide binding]; other site 224308008869 8OG recognition residue [nucleotide binding]; other site 224308008870 putative reading head residues; other site 224308008871 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 224308008872 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 224308008873 DNA polymerase I; Provisional; Region: PRK05755 224308008874 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 224308008875 active site 224308008876 metal binding site 1 [ion binding]; metal-binding site 224308008877 putative 5' ssDNA interaction site; other site 224308008878 metal binding site 3; metal-binding site 224308008879 metal binding site 2 [ion binding]; metal-binding site 224308008880 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 224308008881 putative DNA binding site [nucleotide binding]; other site 224308008882 putative metal binding site [ion binding]; other site 224308008883 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 224308008884 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 224308008885 active site 224308008886 DNA binding site [nucleotide binding] 224308008887 catalytic site [active] 224308008888 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 224308008889 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 224308008890 putative active site [active] 224308008891 heme pocket [chemical binding]; other site 224308008892 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 224308008893 dimer interface [polypeptide binding]; other site 224308008894 phosphorylation site [posttranslational modification] 224308008895 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 224308008896 ATP binding site [chemical binding]; other site 224308008897 Mg2+ binding site [ion binding]; other site 224308008898 G-X-G motif; other site 224308008899 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224308008900 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 224308008901 active site 224308008902 phosphorylation site [posttranslational modification] 224308008903 intermolecular recognition site; other site 224308008904 dimerization interface [polypeptide binding]; other site 224308008905 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 224308008906 DNA binding site [nucleotide binding] 224308008907 malate dehydrogenase; Reviewed; Region: PRK06223 224308008908 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 224308008909 NAD(P) binding site [chemical binding]; other site 224308008910 dimer interface [polypeptide binding]; other site 224308008911 tetramer (dimer of dimers) interface [polypeptide binding]; other site 224308008912 substrate binding site [chemical binding]; other site 224308008913 isocitrate dehydrogenase; Reviewed; Region: PRK07006 224308008914 isocitrate dehydrogenase; Validated; Region: PRK07362 224308008915 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 224308008916 dimer interface [polypeptide binding]; other site 224308008917 Citrate synthase; Region: Citrate_synt; pfam00285 224308008918 active site 224308008919 citrylCoA binding site [chemical binding]; other site 224308008920 oxalacetate/citrate binding site [chemical binding]; other site 224308008921 coenzyme A binding site [chemical binding]; other site 224308008922 catalytic triad [active] 224308008923 Predicted membrane protein [Function unknown]; Region: COG2707 224308008924 sporulation integral membrane protein YtvI; Region: spore_ytvI; TIGR02872 224308008925 Domain of unknown function DUF20; Region: UPF0118; pfam01594 224308008926 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 224308008927 pyruvate kinase; Provisional; Region: PRK06354 224308008928 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; cd00288 224308008929 domain interfaces; other site 224308008930 active site 224308008931 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 224308008932 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 224308008933 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 224308008934 active site 224308008935 ADP/pyrophosphate binding site [chemical binding]; other site 224308008936 dimerization interface [polypeptide binding]; other site 224308008937 allosteric effector site; other site 224308008938 fructose-1,6-bisphosphate binding site; other site 224308008939 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 224308008940 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 224308008941 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 224308008942 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 224308008943 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 224308008944 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 224308008945 Malic enzyme, N-terminal domain; Region: malic; pfam00390 224308008946 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 224308008947 putative NAD(P) binding site [chemical binding]; other site 224308008948 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06920 224308008949 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 224308008950 active site 224308008951 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 224308008952 generic binding surface I; other site 224308008953 generic binding surface II; other site 224308008954 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 224308008955 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 224308008956 DHH family; Region: DHH; pfam01368 224308008957 DHHA1 domain; Region: DHHA1; pfam02272 224308008958 YtpI-like protein; Region: YtpI; pfam14007 224308008959 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 224308008960 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308008961 DNA-binding site [nucleotide binding]; DNA binding site 224308008962 DRTGG domain; Region: DRTGG; pfam07085 224308008963 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 224308008964 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 224308008965 active site 2 [active] 224308008966 active site 1 [active] 224308008967 Predicted permeases [General function prediction only]; Region: COG0730 224308008968 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 224308008969 amidohydrolase; Region: amidohydrolases; TIGR01891 224308008970 metal binding site [ion binding]; metal-binding site 224308008971 dimer interface [polypeptide binding]; other site 224308008972 Riboflavin kinase; Region: Flavokinase; pfam01687 224308008973 Riboflavin kinase; Region: Flavokinase; smart00904 224308008974 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 224308008975 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 224308008976 active site 224308008977 non-prolyl cis peptide bond; other site 224308008978 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 224308008979 catalytic residues [active] 224308008980 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 224308008981 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 224308008982 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 224308008983 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 224308008984 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 224308008985 Walker A/P-loop; other site 224308008986 ATP binding site [chemical binding]; other site 224308008987 Q-loop/lid; other site 224308008988 ABC transporter signature motif; other site 224308008989 Walker B; other site 224308008990 D-loop; other site 224308008991 H-loop/switch region; other site 224308008992 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 224308008993 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 224308008994 dimer interface [polypeptide binding]; other site 224308008995 conserved gate region; other site 224308008996 putative PBP binding loops; other site 224308008997 ABC-ATPase subunit interface; other site 224308008998 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 224308008999 dimer interface [polypeptide binding]; other site 224308009000 conserved gate region; other site 224308009001 putative PBP binding loops; other site 224308009002 ABC-ATPase subunit interface; other site 224308009003 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 224308009004 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 224308009005 substrate binding pocket [chemical binding]; other site 224308009006 membrane-bound complex binding site; other site 224308009007 hinge residues; other site 224308009008 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 224308009009 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 224308009010 substrate binding pocket [chemical binding]; other site 224308009011 membrane-bound complex binding site; other site 224308009012 hinge residues; other site 224308009013 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 224308009014 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308009015 Coenzyme A binding pocket [chemical binding]; other site 224308009016 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308009017 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308009018 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 224308009019 dimerization interface [polypeptide binding]; other site 224308009020 metal-dependent hydrolase; Provisional; Region: PRK00685 224308009021 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 224308009022 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 224308009023 classical (c) SDRs; Region: SDR_c; cd05233 224308009024 NAD(P) binding site [chemical binding]; other site 224308009025 active site 224308009026 argininosuccinate lyase; Provisional; Region: PRK00855 224308009027 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 224308009028 active sites [active] 224308009029 tetramer interface [polypeptide binding]; other site 224308009030 argininosuccinate synthase; Provisional; Region: PRK13820 224308009031 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 224308009032 ANP binding site [chemical binding]; other site 224308009033 Substrate Binding Site II [chemical binding]; other site 224308009034 Substrate Binding Site I [chemical binding]; other site 224308009035 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 224308009036 MPT binding site; other site 224308009037 trimer interface [polypeptide binding]; other site 224308009038 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 224308009039 propionate/acetate kinase; Provisional; Region: PRK12379 224308009040 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 224308009041 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 224308009042 S-adenosylmethionine binding site [chemical binding]; other site 224308009043 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 224308009044 dimer interface [polypeptide binding]; other site 224308009045 catalytic triad [active] 224308009046 peroxidatic and resolving cysteines [active] 224308009047 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 224308009048 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 224308009049 Predicted membrane protein/domain [Function unknown]; Region: COG1714 224308009050 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 224308009051 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 224308009052 tandem repeat interface [polypeptide binding]; other site 224308009053 oligomer interface [polypeptide binding]; other site 224308009054 active site residues [active] 224308009055 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03501 224308009056 ATP-NAD kinase; Region: NAD_kinase; pfam01513 224308009057 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 224308009058 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 224308009059 active site 224308009060 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 224308009061 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 224308009062 active site 224308009063 acyl-activating enzyme (AAE) consensus motif; other site 224308009064 putative CoA binding site [chemical binding]; other site 224308009065 AMP binding site [chemical binding]; other site 224308009066 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 224308009067 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 224308009068 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 224308009069 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 224308009070 Ligand Binding Site [chemical binding]; other site 224308009071 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 224308009072 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 224308009073 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224308009074 catalytic residue [active] 224308009075 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 224308009076 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 224308009077 histidinol-phosphatase; Reviewed; Region: PRK08123 224308009078 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 224308009079 active site 224308009080 dimer interface [polypeptide binding]; other site 224308009081 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308009082 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308009083 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 224308009084 GAF domain; Region: GAF_2; pfam13185 224308009085 GAF domain; Region: GAF; cl17456 224308009086 GAF domain; Region: GAF_3; pfam13492 224308009087 GAF domain; Region: GAF_2; pfam13185 224308009088 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 224308009089 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 224308009090 metal binding site [ion binding]; metal-binding site 224308009091 active site 224308009092 I-site; other site 224308009093 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 224308009094 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 224308009095 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 224308009096 RNA binding surface [nucleotide binding]; other site 224308009097 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 224308009098 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 224308009099 active site 224308009100 HIGH motif; other site 224308009101 dimer interface [polypeptide binding]; other site 224308009102 KMSKS motif; other site 224308009103 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 224308009104 RNA binding surface [nucleotide binding]; other site 224308009105 acetyl-CoA synthetase; Provisional; Region: PRK04319 224308009106 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 224308009107 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 224308009108 active site 224308009109 acyl-activating enzyme (AAE) consensus motif; other site 224308009110 putative CoA binding site [chemical binding]; other site 224308009111 AMP binding site [chemical binding]; other site 224308009112 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308009113 Coenzyme A binding pocket [chemical binding]; other site 224308009114 FOG: CBS domain [General function prediction only]; Region: COG0517 224308009115 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 224308009116 C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB; Region: ACT_AcuB; cd04883 224308009117 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 224308009118 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 224308009119 active site 224308009120 Zn binding site [ion binding]; other site 224308009121 flagellar motor protein MotS; Reviewed; Region: PRK06925 224308009122 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 224308009123 ligand binding site [chemical binding]; other site 224308009124 flagellar motor protein MotP; Reviewed; Region: PRK06926 224308009125 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 224308009126 catabolite control protein A; Region: ccpA; TIGR01481 224308009127 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224308009128 DNA binding site [nucleotide binding] 224308009129 domain linker motif; other site 224308009130 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 224308009131 dimerization interface [polypeptide binding]; other site 224308009132 effector binding site; other site 224308009133 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 224308009134 chorismate mutase domain of gram positive AroA protein; Region: CM_A; TIGR01801 224308009135 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 224308009136 Protein of unknown function (DUF2847); Region: DUF2847; pfam11009 224308009137 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 224308009138 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 224308009139 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 224308009140 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 224308009141 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 224308009142 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 224308009143 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 224308009144 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 224308009145 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 224308009146 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 224308009147 putative tRNA-binding site [nucleotide binding]; other site 224308009148 hypothetical protein; Provisional; Region: PRK13668 224308009149 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 224308009150 catalytic residues [active] 224308009151 YtoQ family protein; Region: YtoQ_fam; TIGR03646 224308009152 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 224308009153 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 224308009154 oligomer interface [polypeptide binding]; other site 224308009155 active site 224308009156 metal binding site [ion binding]; metal-binding site 224308009157 Predicted small secreted protein [Function unknown]; Region: COG5584 224308009158 malate dehydrogenase; Provisional; Region: PRK13529 224308009159 Malic enzyme, N-terminal domain; Region: malic; pfam00390 224308009160 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 224308009161 NAD(P) binding site [chemical binding]; other site 224308009162 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 224308009163 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 224308009164 S-adenosylmethionine binding site [chemical binding]; other site 224308009165 YtzH-like protein; Region: YtzH; pfam14165 224308009166 Phosphotransferase enzyme family; Region: APH; pfam01636 224308009167 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 224308009168 substrate binding site [chemical binding]; other site 224308009169 pullulanase, type I; Region: pulA_typeI; TIGR02104 224308009170 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 224308009171 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 224308009172 Ca binding site [ion binding]; other site 224308009173 active site 224308009174 catalytic site [active] 224308009175 lipid kinase, YegS/Rv2252/BmrU family; Region: TIGR00147 224308009176 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 224308009177 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 224308009178 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 224308009179 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 224308009180 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 224308009181 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 224308009182 dimer interface [polypeptide binding]; other site 224308009183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308009184 catalytic residue [active] 224308009185 dipeptidase PepV; Reviewed; Region: PRK07318 224308009186 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 224308009187 active site 224308009188 metal binding site [ion binding]; metal-binding site 224308009189 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 224308009190 Predicted ABC-type exoprotein transport system, permease component [Intracellular trafficking and secretion]; Region: EcsB; COG4473 224308009191 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 224308009192 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 224308009193 Walker A/P-loop; other site 224308009194 ATP binding site [chemical binding]; other site 224308009195 Q-loop/lid; other site 224308009196 ABC transporter signature motif; other site 224308009197 Walker B; other site 224308009198 D-loop; other site 224308009199 H-loop/switch region; other site 224308009200 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 224308009201 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 224308009202 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 224308009203 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 224308009204 RNA binding surface [nucleotide binding]; other site 224308009205 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 224308009206 active site 224308009207 uracil binding [chemical binding]; other site 224308009208 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 224308009209 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 224308009210 Predicted flavoproteins [General function prediction only]; Region: COG2081 224308009211 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 224308009212 BCCT family transporter; Region: BCCT; pfam02028 224308009213 Protein of unknown function (DUF2758); Region: DUF2758; pfam10957 224308009214 Predicted integral membrane protein [Function unknown]; Region: COG5578 224308009215 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224308009216 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224308009217 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224308009218 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 224308009219 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 224308009220 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 224308009221 dimer interface [polypeptide binding]; other site 224308009222 conserved gate region; other site 224308009223 ABC-ATPase subunit interface; other site 224308009224 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 224308009225 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308009226 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 224308009227 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224308009228 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 224308009229 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224308009230 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 224308009231 dimer interface [polypeptide binding]; other site 224308009232 conserved gate region; other site 224308009233 putative PBP binding loops; other site 224308009234 ABC-ATPase subunit interface; other site 224308009235 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 224308009236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224308009237 NAD(P) binding site [chemical binding]; other site 224308009238 active site 224308009239 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 224308009240 Cytochrome P450; Region: p450; cl12078 224308009241 biotin synthase; Validated; Region: PRK06256 224308009242 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 224308009243 FeS/SAM binding site; other site 224308009244 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 224308009245 AAA domain; Region: AAA_26; pfam13500 224308009246 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 224308009247 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 224308009248 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 224308009249 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 224308009250 substrate-cofactor binding pocket; other site 224308009251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308009252 catalytic residue [active] 224308009253 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 224308009254 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 224308009255 inhibitor-cofactor binding pocket; inhibition site 224308009256 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308009257 catalytic residue [active] 224308009258 Pimeloyl-CoA synthetase [Coenzyme metabolism]; Region: BioW; COG1424 224308009259 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 224308009260 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 224308009261 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224308009262 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224308009263 DNA binding site [nucleotide binding] 224308009264 domain linker motif; other site 224308009265 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 224308009266 putative ligand binding site [chemical binding]; other site 224308009267 putative dimerization interface [polypeptide binding]; other site 224308009268 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 224308009269 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 224308009270 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 224308009271 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 224308009272 dimer interface [polypeptide binding]; other site 224308009273 conserved gate region; other site 224308009274 putative PBP binding loops; other site 224308009275 ABC-ATPase subunit interface; other site 224308009276 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224308009277 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 224308009278 dimer interface [polypeptide binding]; other site 224308009279 conserved gate region; other site 224308009280 putative PBP binding loops; other site 224308009281 ABC-ATPase subunit interface; other site 224308009282 alpha-galactosidase; Provisional; Region: PRK15076 224308009283 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 224308009284 NAD binding site [chemical binding]; other site 224308009285 sugar binding site [chemical binding]; other site 224308009286 divalent metal binding site [ion binding]; other site 224308009287 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 224308009288 dimer interface [polypeptide binding]; other site 224308009289 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 224308009290 active site residue [active] 224308009291 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 224308009292 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 224308009293 HIGH motif; other site 224308009294 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 224308009295 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 224308009296 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 224308009297 active site 224308009298 KMSKS motif; other site 224308009299 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 224308009300 tRNA binding surface [nucleotide binding]; other site 224308009301 Protein of unknown function (DUF4257); Region: DUF4257; pfam14074 224308009302 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 224308009303 PAS domain; Region: PAS_9; pfam13426 224308009304 putative active site [active] 224308009305 heme pocket [chemical binding]; other site 224308009306 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 224308009307 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 224308009308 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308009309 putative substrate translocation pore; other site 224308009310 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 224308009311 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 224308009312 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 224308009313 FtsX-like permease family; Region: FtsX; pfam02687 224308009314 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 224308009315 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 224308009316 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 224308009317 Walker A/P-loop; other site 224308009318 ATP binding site [chemical binding]; other site 224308009319 Q-loop/lid; other site 224308009320 ABC transporter signature motif; other site 224308009321 Walker B; other site 224308009322 D-loop; other site 224308009323 H-loop/switch region; other site 224308009324 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224308009325 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 224308009326 ATP binding site [chemical binding]; other site 224308009327 Mg2+ binding site [ion binding]; other site 224308009328 G-X-G motif; other site 224308009329 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224308009330 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 224308009331 active site 224308009332 phosphorylation site [posttranslational modification] 224308009333 intermolecular recognition site; other site 224308009334 dimerization interface [polypeptide binding]; other site 224308009335 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 224308009336 DNA binding site [nucleotide binding] 224308009337 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 224308009338 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 224308009339 FtsX-like permease family; Region: FtsX; pfam02687 224308009340 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 224308009341 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 224308009342 Walker A/P-loop; other site 224308009343 ATP binding site [chemical binding]; other site 224308009344 Q-loop/lid; other site 224308009345 ABC transporter signature motif; other site 224308009346 Walker B; other site 224308009347 D-loop; other site 224308009348 H-loop/switch region; other site 224308009349 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 224308009350 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 224308009351 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 224308009352 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 224308009353 Walker A/P-loop; other site 224308009354 ATP binding site [chemical binding]; other site 224308009355 Q-loop/lid; other site 224308009356 ABC transporter signature motif; other site 224308009357 Walker B; other site 224308009358 D-loop; other site 224308009359 H-loop/switch region; other site 224308009360 Predicted transcriptional regulators [Transcription]; Region: COG1725 224308009361 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308009362 DNA-binding site [nucleotide binding]; DNA binding site 224308009363 Protein of unknown function (DUF2524); Region: DUF2524; pfam10732 224308009364 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 224308009365 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 224308009366 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 224308009367 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 224308009368 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 224308009369 PGAP1-like protein; Region: PGAP1; pfam07819 224308009370 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 224308009371 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 224308009372 trimer interface [polypeptide binding]; other site 224308009373 putative metal binding site [ion binding]; other site 224308009374 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 224308009375 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 224308009376 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 224308009377 active site 224308009378 dimer interface [polypeptide binding]; other site 224308009379 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 224308009380 Ligand Binding Site [chemical binding]; other site 224308009381 Molecular Tunnel; other site 224308009382 S-adenosylmethionine synthetase; Validated; Region: PRK05250 224308009383 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 224308009384 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 224308009385 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 224308009386 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 224308009387 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 224308009388 active site 224308009389 substrate-binding site [chemical binding]; other site 224308009390 metal-binding site [ion binding] 224308009391 ATP binding site [chemical binding]; other site 224308009392 Protein of unknown function (DUF2584); Region: DUF2584; pfam10763 224308009393 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 224308009394 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 224308009395 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 224308009396 NMT1-like family; Region: NMT1_2; pfam13379 224308009397 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 224308009398 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 224308009399 Walker A/P-loop; other site 224308009400 ATP binding site [chemical binding]; other site 224308009401 Q-loop/lid; other site 224308009402 ABC transporter signature motif; other site 224308009403 Walker B; other site 224308009404 D-loop; other site 224308009405 H-loop/switch region; other site 224308009406 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 224308009407 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 224308009408 dimer interface [polypeptide binding]; other site 224308009409 conserved gate region; other site 224308009410 putative PBP binding loops; other site 224308009411 ABC-ATPase subunit interface; other site 224308009412 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 224308009413 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 224308009414 nudix motif; other site 224308009415 Phage-related holin (Lysis protein) [General function prediction only]; Region: COG4824 224308009416 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 224308009417 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 224308009418 dimerization interface [polypeptide binding]; other site 224308009419 DPS ferroxidase diiron center [ion binding]; other site 224308009420 ion pore; other site 224308009421 YtkA-like; Region: YtkA; pfam13115 224308009422 S-Ribosylhomocysteinase (LuxS); Region: LuxS; pfam02664 224308009423 Haemolytic domain; Region: Haemolytic; pfam01809 224308009424 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 224308009425 active site clefts [active] 224308009426 zinc binding site [ion binding]; other site 224308009427 dimer interface [polypeptide binding]; other site 224308009428 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 224308009429 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 224308009430 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 224308009431 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 224308009432 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 224308009433 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 224308009434 ABC-ATPase subunit interface; other site 224308009435 dimer interface [polypeptide binding]; other site 224308009436 putative PBP binding regions; other site 224308009437 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 224308009438 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 224308009439 ABC-ATPase subunit interface; other site 224308009440 dimer interface [polypeptide binding]; other site 224308009441 putative PBP binding regions; other site 224308009442 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 224308009443 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 224308009444 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 224308009445 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 224308009446 Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins...; Region: TroA; cd01016 224308009447 metal binding site [ion binding]; metal-binding site 224308009448 intersubunit interface [polypeptide binding]; other site 224308009449 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 224308009450 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 224308009451 active site 224308009452 octamer interface [polypeptide binding]; other site 224308009453 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 224308009454 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 224308009455 acyl-activating enzyme (AAE) consensus motif; other site 224308009456 putative AMP binding site [chemical binding]; other site 224308009457 putative active site [active] 224308009458 putative CoA binding site [chemical binding]; other site 224308009459 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 224308009460 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 224308009461 substrate binding site [chemical binding]; other site 224308009462 oxyanion hole (OAH) forming residues; other site 224308009463 trimer interface [polypeptide binding]; other site 224308009464 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 224308009465 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 224308009466 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 224308009467 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 224308009468 dimer interface [polypeptide binding]; other site 224308009469 tetramer interface [polypeptide binding]; other site 224308009470 PYR/PP interface [polypeptide binding]; other site 224308009471 TPP binding site [chemical binding]; other site 224308009472 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 224308009473 TPP-binding site; other site 224308009474 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 224308009475 chorismate binding enzyme; Region: Chorismate_bind; cl10555 224308009476 regulatory protein, yteA family; Region: bacill_yteA; TIGR02890 224308009477 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 224308009478 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 224308009479 active site 224308009480 tetramer interface; other site 224308009481 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 224308009482 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 224308009483 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 224308009484 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 224308009485 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 224308009486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224308009487 NAD(P) binding site [chemical binding]; other site 224308009488 active site 224308009489 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224308009490 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 224308009491 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 224308009492 spore coat protein YutH; Region: spore_yutH; TIGR02905 224308009493 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224308009494 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 224308009495 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 224308009496 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 224308009497 Tryptophan-rich sensory protein (mitochondrial benzodiazepine receptor homolog) [Signal transduction mechanisms]; Region: COG3476 224308009498 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 224308009499 homodimer interface [polypeptide binding]; other site 224308009500 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 224308009501 active site pocket [active] 224308009502 glycogen synthase; Provisional; Region: glgA; PRK00654 224308009503 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 224308009504 ADP-binding pocket [chemical binding]; other site 224308009505 homodimer interface [polypeptide binding]; other site 224308009506 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 224308009507 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 224308009508 ligand binding site; other site 224308009509 oligomer interface; other site 224308009510 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 224308009511 dimer interface [polypeptide binding]; other site 224308009512 N-terminal domain interface [polypeptide binding]; other site 224308009513 sulfate 1 binding site; other site 224308009514 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 224308009515 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 224308009516 ligand binding site; other site 224308009517 oligomer interface; other site 224308009518 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 224308009519 dimer interface [polypeptide binding]; other site 224308009520 N-terminal domain interface [polypeptide binding]; other site 224308009521 sulfate 1 binding site; other site 224308009522 alpha-1,4-glucan:alpha-1,4-glucan 6-glycosyltransferase; Region: branching_enzym; TIGR01515 224308009523 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 224308009524 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 224308009525 active site 224308009526 catalytic site [active] 224308009527 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 224308009528 Predicted membrane protein [Function unknown]; Region: COG3859 224308009529 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 224308009530 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308009531 Coenzyme A binding pocket [chemical binding]; other site 224308009532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 224308009533 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 224308009534 DinB superfamily; Region: DinB_2; pfam12867 224308009535 MOSC domain; Region: MOSC; pfam03473 224308009536 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 224308009537 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 224308009538 active site 224308009539 NAD binding site [chemical binding]; other site 224308009540 metal binding site [ion binding]; metal-binding site 224308009541 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 224308009542 glycine betaine aldehyde dehydrogenase; Region: BADH; TIGR01804 224308009543 tetramerization interface [polypeptide binding]; other site 224308009544 NAD(P) binding site [chemical binding]; other site 224308009545 catalytic residues [active] 224308009546 Predicted transcriptional regulators [Transcription]; Region: COG1510 224308009547 MarR family; Region: MarR_2; pfam12802 224308009548 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 224308009549 TrkA-N domain; Region: TrkA_N; pfam02254 224308009550 TrkA-C domain; Region: TrkA_C; pfam02080 224308009551 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 224308009552 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 224308009553 Predicted membrane protein [Function unknown]; Region: COG4682 224308009554 yiaA/B two helix domain; Region: YiaAB; pfam05360 224308009555 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 224308009556 SH3-like domain; Region: SH3_8; pfam13457 224308009557 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308009558 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 224308009559 putative substrate translocation pore; other site 224308009560 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 224308009561 undecaprenyl-diphosphatase UppP; Region: undec_PP_bacA; TIGR00753 224308009562 Domain of unknown function DUF20; Region: UPF0118; pfam01594 224308009563 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 224308009564 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224308009565 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224308009566 L-rhamnose isomerase (RhaA); Region: RhaA; pfam06134 224308009567 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 224308009568 Domain of unknown function (DUF718); Region: DUF718; cl01281 224308009569 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 224308009570 N- and C-terminal domain interface [polypeptide binding]; other site 224308009571 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 224308009572 active site 224308009573 putative catalytic site [active] 224308009574 metal binding site [ion binding]; metal-binding site 224308009575 ATP binding site [chemical binding]; other site 224308009576 carbohydrate binding site [chemical binding]; other site 224308009577 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 224308009578 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 224308009579 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 224308009580 short chain dehydrogenase; Validated; Region: PRK08324 224308009581 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 224308009582 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 224308009583 putative NAD(P) binding site [chemical binding]; other site 224308009584 active site 224308009585 Homologues of the ligand binding domain of Tar; Region: TarH; smart00319 224308009586 Cache domain; Region: Cache_1; pfam02743 224308009587 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 224308009588 dimerization interface [polypeptide binding]; other site 224308009589 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 224308009590 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 224308009591 dimer interface [polypeptide binding]; other site 224308009592 putative CheW interface [polypeptide binding]; other site 224308009593 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 224308009594 Homologues of the ligand binding domain of Tar; Region: TarH; smart00319 224308009595 Cache domain; Region: Cache_1; pfam02743 224308009596 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 224308009597 dimerization interface [polypeptide binding]; other site 224308009598 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 224308009599 dimer interface [polypeptide binding]; other site 224308009600 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 224308009601 putative CheW interface [polypeptide binding]; other site 224308009602 Tar ligand binding domain homologue; Region: TarH; pfam02203 224308009603 Cache domain; Region: Cache_1; pfam02743 224308009604 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 224308009605 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 224308009606 dimerization interface [polypeptide binding]; other site 224308009607 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 224308009608 dimer interface [polypeptide binding]; other site 224308009609 putative CheW interface [polypeptide binding]; other site 224308009610 Homologues of the ligand binding domain of Tar; Region: TarH; smart00319 224308009611 Cache domain; Region: Cache_1; pfam02743 224308009612 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 224308009613 dimerization interface [polypeptide binding]; other site 224308009614 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 224308009615 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 224308009616 dimer interface [polypeptide binding]; other site 224308009617 putative CheW interface [polypeptide binding]; other site 224308009618 transglutaminase; Provisional; Region: tgl; PRK03187 224308009619 secondary thiamine-phosphate synthase enzyme; Region: TIGR00149_YjbQ 224308009620 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 224308009621 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 224308009622 Ca binding site [ion binding]; other site 224308009623 active site 224308009624 catalytic site [active] 224308009625 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 224308009626 Domain of unknown function DUF21; Region: DUF21; pfam01595 224308009627 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 224308009628 Transporter associated domain; Region: CorC_HlyC; smart01091 224308009629 Predicted Zn-dependent protease [General function prediction only]; Region: COG2738 224308009630 Membrane-integrating protein Mistic; Region: Mistic; pfam11458 224308009631 Ion channel; Region: Ion_trans_2; pfam07885 224308009632 TrkA-N domain; Region: TrkA_N; pfam02254 224308009633 YugN-like family; Region: YugN; pfam08868 224308009634 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 224308009635 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 224308009636 active site 224308009637 dimer interface [polypeptide binding]; other site 224308009638 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 224308009639 dimer interface [polypeptide binding]; other site 224308009640 active site 224308009641 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 224308009642 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 224308009643 dimer interface [polypeptide binding]; other site 224308009644 active site 224308009645 metal binding site [ion binding]; metal-binding site 224308009646 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 224308009647 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 224308009648 dimer interface [polypeptide binding]; other site 224308009649 active site 224308009650 metal binding site [ion binding]; metal-binding site 224308009651 Uncharacterized conserved protein [Function unknown]; Region: COG2155 224308009652 general stress protein 13; Validated; Region: PRK08059 224308009653 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 224308009654 RNA binding site [nucleotide binding]; other site 224308009655 hypothetical protein; Validated; Region: PRK07682 224308009656 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 224308009657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308009658 homodimer interface [polypeptide binding]; other site 224308009659 catalytic residue [active] 224308009660 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 224308009661 AsnC family; Region: AsnC_trans_reg; pfam01037 224308009662 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 224308009663 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 224308009664 nucleophilic elbow; other site 224308009665 catalytic triad; other site 224308009666 Domain of unknown function (DUF1871); Region: DUF1871; pfam08958 224308009667 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 224308009668 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 224308009669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308009670 homodimer interface [polypeptide binding]; other site 224308009671 catalytic residue [active] 224308009672 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224308009673 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 224308009674 dimer interface [polypeptide binding]; other site 224308009675 phosphorylation site [posttranslational modification] 224308009676 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 224308009677 ATP binding site [chemical binding]; other site 224308009678 Mg2+ binding site [ion binding]; other site 224308009679 G-X-G motif; other site 224308009680 Kinase associated protein B; Region: KapB; pfam08810 224308009681 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 224308009682 active site 224308009683 catalytic site [active] 224308009684 substrate binding site [chemical binding]; other site 224308009685 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 224308009686 drug efflux system protein MdtG; Provisional; Region: PRK09874 224308009687 putative substrate translocation pore; other site 224308009688 Transglycosylase; Region: Transgly; pfam00912 224308009689 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 224308009690 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 224308009691 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 224308009692 sensory histidine kinase DcuS; Provisional; Region: PRK11086 224308009693 PAS domain; Region: PAS; smart00091 224308009694 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 224308009695 ATP binding site [chemical binding]; other site 224308009696 G-X-G motif; other site 224308009697 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 224308009698 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 224308009699 active site 224308009700 phosphorylation site [posttranslational modification] 224308009701 intermolecular recognition site; other site 224308009702 dimerization interface [polypeptide binding]; other site 224308009703 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 224308009704 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 224308009705 ligand binding site [chemical binding]; other site 224308009706 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 224308009707 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 224308009708 Walker A/P-loop; other site 224308009709 ATP binding site [chemical binding]; other site 224308009710 Q-loop/lid; other site 224308009711 ABC transporter signature motif; other site 224308009712 Walker B; other site 224308009713 D-loop; other site 224308009714 H-loop/switch region; other site 224308009715 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 224308009716 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224308009717 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 224308009718 TM-ABC transporter signature motif; other site 224308009719 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224308009720 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 224308009721 TM-ABC transporter signature motif; other site 224308009722 Na+/citrate symporter [Energy production and conversion]; Region: CitS; COG3493 224308009723 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 224308009724 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 224308009725 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 224308009726 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 224308009727 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 224308009728 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 224308009729 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 224308009730 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 224308009731 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12600 224308009732 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12586 224308009733 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 224308009734 CoenzymeA binding site [chemical binding]; other site 224308009735 subunit interaction site [polypeptide binding]; other site 224308009736 PHB binding site; other site 224308009737 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 224308009738 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 224308009739 active site 224308009740 phosphorylation site [posttranslational modification] 224308009741 intermolecular recognition site; other site 224308009742 dimerization interface [polypeptide binding]; other site 224308009743 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 224308009744 DNA binding residues [nucleotide binding] 224308009745 dimerization interface [polypeptide binding]; other site 224308009746 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 224308009747 Histidine kinase; Region: HisKA_3; pfam07730 224308009748 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 224308009749 ATP binding site [chemical binding]; other site 224308009750 Mg2+ binding site [ion binding]; other site 224308009751 G-X-G motif; other site 224308009752 Bacillus competence pheromone ComX; Region: ComX; pfam05952 224308009753 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 224308009754 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 224308009755 substrate binding pocket [chemical binding]; other site 224308009756 substrate-Mg2+ binding site; other site 224308009757 aspartate-rich region 1; other site 224308009758 DegQ (SacQ) family; Region: DegQ; pfam08181 224308009759 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 224308009760 EAL domain; Region: EAL; pfam00563 224308009761 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 224308009762 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 224308009763 active site 224308009764 Isochorismatase family; Region: Isochorismatase; pfam00857 224308009765 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 224308009766 catalytic triad [active] 224308009767 conserved cis-peptide bond; other site 224308009768 Uncharacterized conserved protein [Function unknown]; Region: COG5506 224308009769 YueH-like protein; Region: YueH; pfam14166 224308009770 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 224308009771 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 224308009772 Domain of unknown function DUF20; Region: UPF0118; pfam01594 224308009773 Uncharacterized conserved small protein [Function unknown]; Region: COG5428 224308009774 Protein of unknown function (DUF2642); Region: DUF2642; pfam10842 224308009775 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 224308009776 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 224308009777 Zn2+ binding site [ion binding]; other site 224308009778 Mg2+ binding site [ion binding]; other site 224308009779 short chain dehydrogenase; Provisional; Region: PRK06924 224308009780 sepiapterin reductase (SPR)-like, classical (c) SDRs; Region: SPR-like_SDR_c; cd05367 224308009781 NADP binding site [chemical binding]; other site 224308009782 homodimer interface [polypeptide binding]; other site 224308009783 active site 224308009784 type VII secretion protein EssA; Region: T7SS_EssA_Firm; TIGR03927 224308009785 Predicted membrane protein [Function unknown]; Region: COG1511 224308009786 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 224308009787 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 224308009788 exosortase F-associated protein; Region: flavo_near_exo; TIGR04127 224308009789 DNA transporter; Region: FtsK_SpoIIIE_N; pfam12538 224308009790 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 224308009791 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 224308009792 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 224308009793 Domain of unknown function DUF87; Region: DUF87; pfam01935 224308009794 Predicted membrane protein [Function unknown]; Region: COG4499 224308009795 type VII secretion protein EssB; Region: T7_EssB; TIGR03926 224308009796 Uncharacterized small protein [Function unknown]; Region: COG5417 224308009797 Ubiquitin homologues; Region: UBQ; smart00213 224308009798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 224308009799 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 224308009800 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 224308009801 alanine dehydrogenase; Region: alaDH; TIGR00518 224308009802 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 224308009803 hexamer interface [polypeptide binding]; other site 224308009804 ligand binding site [chemical binding]; other site 224308009805 putative active site [active] 224308009806 NAD(P) binding site [chemical binding]; other site 224308009807 Uncharacterized conserved protein [Function unknown]; Region: COG5634 224308009808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 224308009809 Condensation domain; Region: Condensation; pfam00668 224308009810 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 224308009811 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 224308009812 acyl-activating enzyme (AAE) consensus motif; other site 224308009813 AMP binding site [chemical binding]; other site 224308009814 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308009815 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 224308009816 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 224308009817 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 224308009818 acyl-activating enzyme (AAE) consensus motif; other site 224308009819 AMP binding site [chemical binding]; other site 224308009820 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 224308009821 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 224308009822 hydrophobic substrate binding pocket; other site 224308009823 Isochorismatase family; Region: Isochorismatase; pfam00857 224308009824 active site 224308009825 conserved cis-peptide bond; other site 224308009826 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 224308009827 2,3-dihydroxybenzoate-AMP ligase; Region: DHB_AMP_lig; TIGR02275 224308009828 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 224308009829 acyl-activating enzyme (AAE) consensus motif; other site 224308009830 active site 224308009831 AMP binding site [chemical binding]; other site 224308009832 substrate binding site [chemical binding]; other site 224308009833 isochorismate synthase DhbC; Validated; Region: PRK06923 224308009834 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 224308009835 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 224308009836 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 224308009837 putative NAD(P) binding site [chemical binding]; other site 224308009838 active site 224308009839 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 224308009840 Putative esterase; Region: Esterase; pfam00756 224308009841 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 224308009842 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 224308009843 Moco binding site; other site 224308009844 metal coordination site [ion binding]; other site 224308009845 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 224308009846 Predicted permease [General function prediction only]; Region: COG2056 224308009847 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 224308009848 multifunctional aminopeptidase A; Provisional; Region: PRK00913 224308009849 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 224308009850 interface (dimer of trimers) [polypeptide binding]; other site 224308009851 Substrate-binding/catalytic site; other site 224308009852 Zn-binding sites [ion binding]; other site 224308009853 Divergent PAP2 family; Region: DUF212; pfam02681 224308009854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 224308009855 Putative membrane protein; Region: YuiB; pfam14068 224308009856 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]; Region: COG1107 224308009857 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 224308009858 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224308009859 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 224308009860 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 224308009861 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224308009862 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 224308009863 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 224308009864 active site 224308009865 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 224308009866 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 224308009867 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308009868 Coenzyme A binding pocket [chemical binding]; other site 224308009869 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 224308009870 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 224308009871 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 224308009872 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 224308009873 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 224308009874 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 224308009875 Nucleoside recognition; Region: Gate; pfam07670 224308009876 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 224308009877 hypothetical protein; Provisional; Region: PRK13669 224308009878 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 224308009879 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224308009880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4837 224308009881 NifU-like domain; Region: NifU; pfam01106 224308009882 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 224308009883 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 224308009884 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 224308009885 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 224308009886 homoserine kinase; Region: thrB; TIGR00191 224308009887 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 224308009888 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 224308009889 threonine synthase; Reviewed; Region: PRK06721 224308009890 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 224308009891 homodimer interface [polypeptide binding]; other site 224308009892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308009893 catalytic residue [active] 224308009894 homoserine dehydrogenase; Provisional; Region: PRK06349 224308009895 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 224308009896 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 224308009897 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 224308009898 spore coat protein YutH; Region: spore_yutH; TIGR02905 224308009899 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 224308009900 tetramer interfaces [polypeptide binding]; other site 224308009901 binuclear metal-binding site [ion binding]; other site 224308009902 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 224308009903 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 224308009904 active site 224308009905 motif I; other site 224308009906 motif II; other site 224308009907 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 224308009908 Uncharacterized conserved protein [Function unknown]; Region: COG2445 224308009909 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 224308009910 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 224308009911 lipoyl synthase; Provisional; Region: PRK05481 224308009912 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 224308009913 FeS/SAM binding site; other site 224308009914 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 224308009915 Peptidase family M23; Region: Peptidase_M23; pfam01551 224308009916 sporulation protein YunB; Region: spo_yunB; TIGR02832 224308009917 Uncharacterized conserved protein [Function unknown]; Region: COG3377 224308009918 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 224308009919 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 224308009920 active site 224308009921 metal binding site [ion binding]; metal-binding site 224308009922 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 224308009923 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 224308009924 Uncharacterized conserved protein [Function unknown]; Region: COG1801 224308009925 allantoinase; Provisional; Region: PRK06189 224308009926 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 224308009927 active site 224308009928 DRTGG domain; Region: DRTGG; pfam07085 224308009929 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 224308009930 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 224308009931 xanthine permease; Region: pbuX; TIGR03173 224308009932 xanthine permease; Region: pbuX; TIGR03173 224308009933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 224308009934 Uricase (urate oxidase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3648 224308009935 Urate oxidase (UO, uricase) is a peroxisomal enzyme that catalyzes the oxidation of uric acid to allantoin in most fish, amphibian, and mammalian species. The enzymatic process involves catalyzing the oxidative opening of the purine ring during the...; Region: Uricase; cd00445 224308009936 tetramer interface [polypeptide binding]; other site 224308009937 active site 224308009938 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cd05469 224308009939 active site 224308009940 homotetramer interface [polypeptide binding]; other site 224308009941 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 224308009942 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 224308009943 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 224308009944 xanthine dehydrogenase D subunit; Region: pucD; TIGR03196 224308009945 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 224308009946 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 224308009947 xanthine dehydrogenase C subunit; Region: pucC; TIGR03199 224308009948 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 224308009949 Ligand binding site; other site 224308009950 metal-binding site 224308009951 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 224308009952 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 224308009953 XdhC Rossmann domain; Region: XdhC_C; pfam13478 224308009954 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 224308009955 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224308009956 catalytic residue [active] 224308009957 allantoate amidohydrolase; Reviewed; Region: PRK09290 224308009958 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 224308009959 active site 224308009960 metal binding site [ion binding]; metal-binding site 224308009961 dimer interface [polypeptide binding]; other site 224308009962 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 224308009963 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 224308009964 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 224308009965 Walker A/P-loop; other site 224308009966 ATP binding site [chemical binding]; other site 224308009967 Q-loop/lid; other site 224308009968 ABC transporter signature motif; other site 224308009969 Walker B; other site 224308009970 D-loop; other site 224308009971 H-loop/switch region; other site 224308009972 TOBE domain; Region: TOBE_2; pfam08402 224308009973 DNA-binding transcriptional regulator FrlR; Provisional; Region: PRK11402 224308009974 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308009975 DNA-binding site [nucleotide binding]; DNA binding site 224308009976 UTRA domain; Region: UTRA; pfam07702 224308009977 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 224308009978 Fructoselysine kinase-like. Fructoselysine is a fructoseamine formed by glycation, a non-enzymatic reaction of glucose with a primary amine followed by an Amadori rearrangement, resulting in a protein that is modified at the amino terminus and at the...; Region: Fructoselysine_kinase_like; cd01940 224308009979 substrate binding site [chemical binding]; other site 224308009980 ATP binding site [chemical binding]; other site 224308009981 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224308009982 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 224308009983 dimer interface [polypeptide binding]; other site 224308009984 conserved gate region; other site 224308009985 putative PBP binding loops; other site 224308009986 ABC-ATPase subunit interface; other site 224308009987 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 224308009988 dimer interface [polypeptide binding]; other site 224308009989 conserved gate region; other site 224308009990 putative PBP binding loops; other site 224308009991 ABC-ATPase subunit interface; other site 224308009992 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 224308009993 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 224308009994 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 224308009995 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 224308009996 putative active site [active] 224308009997 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 224308009998 dimer interface [polypeptide binding]; other site 224308009999 active site 224308010000 Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]; Region: UvrC; COG0322 224308010001 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 224308010002 GIY-YIG motif/motif A; other site 224308010003 active site 224308010004 catalytic site [active] 224308010005 putative DNA binding site [nucleotide binding]; other site 224308010006 metal binding site [ion binding]; metal-binding site 224308010007 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 224308010008 hydroxyglutarate oxidase; Provisional; Region: PRK11728 224308010009 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308010010 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 224308010011 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 224308010012 dimerization interface [polypeptide binding]; other site 224308010013 putative DNA binding site [nucleotide binding]; other site 224308010014 putative Zn2+ binding site [ion binding]; other site 224308010015 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 224308010016 FeS assembly protein SufB; Region: sufB; TIGR01980 224308010017 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 224308010018 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 224308010019 trimerization site [polypeptide binding]; other site 224308010020 active site 224308010021 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 224308010022 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 224308010023 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224308010024 catalytic residue [active] 224308010025 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 224308010026 FeS assembly protein SufD; Region: sufD; TIGR01981 224308010027 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 224308010028 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 224308010029 Walker A/P-loop; other site 224308010030 ATP binding site [chemical binding]; other site 224308010031 Q-loop/lid; other site 224308010032 ABC transporter signature motif; other site 224308010033 Walker B; other site 224308010034 D-loop; other site 224308010035 H-loop/switch region; other site 224308010036 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 224308010037 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 224308010038 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 224308010039 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 224308010040 conserved gate region; other site 224308010041 ABC-ATPase subunit interface; other site 224308010042 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 224308010043 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 224308010044 Walker A/P-loop; other site 224308010045 ATP binding site [chemical binding]; other site 224308010046 Q-loop/lid; other site 224308010047 ABC transporter signature motif; other site 224308010048 Walker B; other site 224308010049 D-loop; other site 224308010050 H-loop/switch region; other site 224308010051 NIL domain; Region: NIL; pfam09383 224308010052 SCP-2 sterol transfer family; Region: SCP2; pfam02036 224308010053 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 224308010054 catalytic residues [active] 224308010055 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 224308010056 putative active site [active] 224308010057 putative metal binding site [ion binding]; other site 224308010058 Protein of unknown function (DUF2553); Region: DUF2553; pfam10830 224308010059 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 224308010060 lipoyl attachment site [posttranslational modification]; other site 224308010061 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 224308010062 ArsC family; Region: ArsC; pfam03960 224308010063 putative ArsC-like catalytic residues; other site 224308010064 putative TRX-like catalytic residues [active] 224308010065 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 224308010066 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 224308010067 active site 224308010068 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 224308010069 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 224308010070 dimer interface [polypeptide binding]; other site 224308010071 active site 224308010072 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 224308010073 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 224308010074 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 224308010075 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 224308010076 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 224308010077 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 224308010078 substrate binding site [chemical binding]; other site 224308010079 oxyanion hole (OAH) forming residues; other site 224308010080 trimer interface [polypeptide binding]; other site 224308010081 Proline dehydrogenase; Region: Pro_dh; pfam01619 224308010082 Coat F domain; Region: Coat_F; pfam07875 224308010083 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308010084 MarR family; Region: MarR; pfam01047 224308010085 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 224308010086 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308010087 putative substrate translocation pore; other site 224308010088 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 224308010089 classical (c) SDRs; Region: SDR_c; cd05233 224308010090 active site 224308010091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224308010092 NAD(P) binding site [chemical binding]; other site 224308010093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308010094 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308010095 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 224308010096 dimerization interface [polypeptide binding]; other site 224308010097 Protein of unknown function (DUF2573); Region: DUF2573; pfam10835 224308010098 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 224308010099 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 224308010100 Walker A/P-loop; other site 224308010101 ATP binding site [chemical binding]; other site 224308010102 Q-loop/lid; other site 224308010103 ABC transporter signature motif; other site 224308010104 Walker B; other site 224308010105 D-loop; other site 224308010106 H-loop/switch region; other site 224308010107 YusW-like protein; Region: YusW; pfam14039 224308010108 Evidence 1a: Function experimentally demonstrated in the studied strain; PubMedId: 11741842; Product type e: enzyme 224308010109 Evidence 2a: Function of homologous gene experimentally demonstrated in an other organism; PubMedId: 11741842; Product type e: enzyme 224308010110 short chain dehydrogenase; Provisional; Region: PRK06914 224308010111 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 224308010112 NADP binding site [chemical binding]; other site 224308010113 active site 224308010114 steroid binding site; other site 224308010115 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 224308010116 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 224308010117 dimerization interface [polypeptide binding]; other site 224308010118 DPS ferroxidase diiron center [ion binding]; other site 224308010119 ion pore; other site 224308010120 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 224308010121 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 224308010122 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 224308010123 protein binding site [polypeptide binding]; other site 224308010124 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224308010125 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 224308010126 active site 224308010127 phosphorylation site [posttranslational modification] 224308010128 intermolecular recognition site; other site 224308010129 dimerization interface [polypeptide binding]; other site 224308010130 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 224308010131 DNA binding site [nucleotide binding] 224308010132 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224308010133 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 224308010134 dimerization interface [polypeptide binding]; other site 224308010135 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 224308010136 dimer interface [polypeptide binding]; other site 224308010137 phosphorylation site [posttranslational modification] 224308010138 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 224308010139 ATP binding site [chemical binding]; other site 224308010140 Mg2+ binding site [ion binding]; other site 224308010141 G-X-G motif; other site 224308010142 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308010143 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308010144 fumarate hydratase; Reviewed; Region: fumC; PRK00485 224308010145 Class II fumarases; Region: Fumarase_classII; cd01362 224308010146 active site 224308010147 tetramer interface [polypeptide binding]; other site 224308010148 Protein of unknown function (DUF3970); Region: DUF3970; pfam13113 224308010149 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 224308010150 Spore germination protein; Region: Spore_permease; pfam03845 224308010151 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 224308010152 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 224308010153 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 224308010154 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 224308010155 active site 224308010156 phosphorylation site [posttranslational modification] 224308010157 intermolecular recognition site; other site 224308010158 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 224308010159 DNA binding residues [nucleotide binding] 224308010160 dimerization interface [polypeptide binding]; other site 224308010161 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 224308010162 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 224308010163 dimerization interface [polypeptide binding]; other site 224308010164 Histidine kinase; Region: HisKA_3; pfam07730 224308010165 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 224308010166 ATP binding site [chemical binding]; other site 224308010167 Mg2+ binding site [ion binding]; other site 224308010168 G-X-G motif; other site 224308010169 Predicted membrane protein [Function unknown]; Region: COG4758 224308010170 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 224308010171 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 224308010172 Uncharacterized conserved protein [Function unknown]; Region: COG3595 224308010173 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 224308010174 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 224308010175 PspA/IM30 family; Region: PspA_IM30; pfam04012 224308010176 H+ Antiporter protein; Region: 2A0121; TIGR00900 224308010177 ATP:cob(I)alamin adenosyltransferase; Region: PduO_Nterm; TIGR00636 224308010178 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 224308010179 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 224308010180 Walker A/P-loop; other site 224308010181 ATP binding site [chemical binding]; other site 224308010182 Q-loop/lid; other site 224308010183 ABC transporter signature motif; other site 224308010184 Walker B; other site 224308010185 D-loop; other site 224308010186 H-loop/switch region; other site 224308010187 Adenosylcobinamide amidohydrolase [Coenzyme metabolism]; Region: cbiZ; COG1865 224308010188 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 224308010189 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 224308010190 ABC-ATPase subunit interface; other site 224308010191 dimer interface [polypeptide binding]; other site 224308010192 putative PBP binding regions; other site 224308010193 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 224308010194 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 224308010195 putative binding site residues; other site 224308010196 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 224308010197 classical (c) SDRs; Region: SDR_c; cd05233 224308010198 NAD(P) binding site [chemical binding]; other site 224308010199 active site 224308010200 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 224308010201 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224308010202 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 224308010203 dimer interface [polypeptide binding]; other site 224308010204 phosphorylation site [posttranslational modification] 224308010205 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 224308010206 ATP binding site [chemical binding]; other site 224308010207 Mg2+ binding site [ion binding]; other site 224308010208 G-X-G motif; other site 224308010209 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224308010210 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 224308010211 active site 224308010212 phosphorylation site [posttranslational modification] 224308010213 intermolecular recognition site; other site 224308010214 dimerization interface [polypeptide binding]; other site 224308010215 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 224308010216 DNA binding site [nucleotide binding] 224308010217 hypothetical protein; Provisional; Region: PRK14082 224308010218 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 224308010219 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 224308010220 DNA binding residues [nucleotide binding] 224308010221 YvrJ protein family; Region: YvrJ; pfam12841 224308010222 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 224308010223 Cupin; Region: Cupin_1; smart00835 224308010224 Cupin; Region: Cupin_1; smart00835 224308010225 Regulatory protein YrvL; Region: YrvL; pfam14184 224308010226 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 224308010227 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 224308010228 FtsX-like permease family; Region: FtsX; pfam02687 224308010229 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 224308010230 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 224308010231 Walker A/P-loop; other site 224308010232 ATP binding site [chemical binding]; other site 224308010233 Q-loop/lid; other site 224308010234 ABC transporter signature motif; other site 224308010235 Walker B; other site 224308010236 D-loop; other site 224308010237 H-loop/switch region; other site 224308010238 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 224308010239 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 224308010240 DNA damage checkpoint protein; Region: LCD1; pfam09798 224308010241 HlyD family secretion protein; Region: HlyD_3; pfam13437 224308010242 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 224308010243 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 224308010244 Walker A/P-loop; other site 224308010245 ATP binding site [chemical binding]; other site 224308010246 Q-loop/lid; other site 224308010247 ABC transporter signature motif; other site 224308010248 Walker B; other site 224308010249 D-loop; other site 224308010250 H-loop/switch region; other site 224308010251 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 224308010252 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 224308010253 ABC-ATPase subunit interface; other site 224308010254 dimer interface [polypeptide binding]; other site 224308010255 putative PBP binding regions; other site 224308010256 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 224308010257 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 224308010258 ABC-ATPase subunit interface; other site 224308010259 dimer interface [polypeptide binding]; other site 224308010260 putative PBP binding regions; other site 224308010261 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 224308010262 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 224308010263 putative ligand binding residues [chemical binding]; other site 224308010264 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 224308010265 small, acid-soluble spore protein, SspJ family; Region: spore_sspJ; TIGR02863 224308010266 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 224308010267 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 224308010268 Sulfatase; Region: Sulfatase; pfam00884 224308010269 DNA binding domain, excisionase family; Region: excise; TIGR01764 224308010270 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]; Region: COG1910 224308010271 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 224308010272 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 224308010273 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 224308010274 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 224308010275 dimer interface [polypeptide binding]; other site 224308010276 conserved gate region; other site 224308010277 putative PBP binding loops; other site 224308010278 ABC-ATPase subunit interface; other site 224308010279 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 224308010280 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 224308010281 active site 224308010282 catalytic tetrad [active] 224308010283 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 224308010284 sulfite reductase subunit beta; Provisional; Region: PRK13504 224308010285 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 224308010286 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 224308010287 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 224308010288 Flavodoxin; Region: Flavodoxin_1; pfam00258 224308010289 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 224308010290 FAD binding pocket [chemical binding]; other site 224308010291 FAD binding motif [chemical binding]; other site 224308010292 catalytic residues [active] 224308010293 NAD binding pocket [chemical binding]; other site 224308010294 phosphate binding motif [ion binding]; other site 224308010295 beta-alpha-beta structure motif; other site 224308010296 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 224308010297 Part of AAA domain; Region: AAA_19; pfam13245 224308010298 Family description; Region: UvrD_C_2; pfam13538 224308010299 Predicted membrane protein [Function unknown]; Region: COG2860 224308010300 UPF0126 domain; Region: UPF0126; pfam03458 224308010301 UPF0126 domain; Region: UPF0126; pfam03458 224308010302 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 224308010303 Thioredoxin; Region: Thioredoxin_4; pfam13462 224308010304 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 224308010305 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 224308010306 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 224308010307 metal-binding site [ion binding] 224308010308 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 224308010309 Soluble P-type ATPase [General function prediction only]; Region: COG4087 224308010310 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 224308010311 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 224308010312 metal-binding site [ion binding] 224308010313 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 224308010314 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 224308010315 metal-binding site [ion binding] 224308010316 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 224308010317 Soluble P-type ATPase [General function prediction only]; Region: COG4087 224308010318 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 224308010319 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 224308010320 metal-binding site [ion binding] 224308010321 Bacillus subtilis copper-sensitive operon repressor (BsCsoR), and related domains; this family was previously known as part of DUF156; Region: BsCsoR-like_DUF156; cd10157 224308010322 putative homodimer interface [polypeptide binding]; other site 224308010323 putative homotetramer interface [polypeptide binding]; other site 224308010324 allosteric switch controlling residues; other site 224308010325 putative metal binding site [ion binding]; other site 224308010326 putative homodimer-homodimer interface [polypeptide binding]; other site 224308010327 putative oxidoreductase; Provisional; Region: PRK11579 224308010328 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224308010329 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224308010330 azoreductase; Reviewed; Region: PRK00170 224308010331 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 224308010332 Predicted membrane protein [Function unknown]; Region: COG1289 224308010333 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 224308010334 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 224308010335 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 224308010336 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308010337 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308010338 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 224308010339 classical (c) SDRs; Region: SDR_c; cd05233 224308010340 NAD(P) binding site [chemical binding]; other site 224308010341 active site 224308010342 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 224308010343 SmpB-tmRNA interface; other site 224308010344 ribonuclease R; Region: RNase_R; TIGR02063 224308010345 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 224308010346 Cold shock protein domain; Region: CSP; smart00357 224308010347 RNB domain; Region: RNB; pfam00773 224308010348 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 224308010349 RNA binding site [nucleotide binding]; other site 224308010350 Esterase/lipase [General function prediction only]; Region: COG1647 224308010351 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 224308010352 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 224308010353 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 224308010354 salt bridge; other site 224308010355 non-specific DNA binding site [nucleotide binding]; other site 224308010356 sequence-specific DNA binding site [nucleotide binding]; other site 224308010357 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224308010358 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 224308010359 non-specific DNA binding site [nucleotide binding]; other site 224308010360 salt bridge; other site 224308010361 sequence-specific DNA binding site [nucleotide binding]; other site 224308010362 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224308010363 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 224308010364 non-specific DNA binding site [nucleotide binding]; other site 224308010365 salt bridge; other site 224308010366 sequence-specific DNA binding site [nucleotide binding]; other site 224308010367 Predicted transcriptional regulators [Transcription]; Region: COG1733 224308010368 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 224308010369 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 224308010370 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 224308010371 dimerization interface [polypeptide binding]; other site 224308010372 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 224308010373 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 224308010374 dimer interface [polypeptide binding]; other site 224308010375 putative CheW interface [polypeptide binding]; other site 224308010376 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 224308010377 dimer interface [polypeptide binding]; other site 224308010378 conserved gate region; other site 224308010379 putative PBP binding loops; other site 224308010380 ABC-ATPase subunit interface; other site 224308010381 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 224308010382 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 224308010383 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 224308010384 dimer interface [polypeptide binding]; other site 224308010385 conserved gate region; other site 224308010386 putative PBP binding loops; other site 224308010387 ABC-ATPase subunit interface; other site 224308010388 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 224308010389 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 224308010390 Walker A/P-loop; other site 224308010391 ATP binding site [chemical binding]; other site 224308010392 Q-loop/lid; other site 224308010393 ABC transporter signature motif; other site 224308010394 Walker B; other site 224308010395 D-loop; other site 224308010396 H-loop/switch region; other site 224308010397 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 224308010398 Predicted transcriptional regulators [Transcription]; Region: COG1510 224308010399 MarR family; Region: MarR_2; pfam12802 224308010400 antimicrobial peptide system protein, SdpA family; Region: export_SdpA; TIGR04034 224308010401 antimicrobial peptide system protein, SdpB family; Region: export_SdpB; TIGR04033 224308010402 antimicrobial peptide, SdpC family; Region: toxin_SdpC; TIGR04032 224308010403 Predicted integral membrane protein [Function unknown]; Region: COG5658 224308010404 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 224308010405 SdpI/YhfL protein family; Region: SdpI; pfam13630 224308010406 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 224308010407 dimerization interface [polypeptide binding]; other site 224308010408 putative DNA binding site [nucleotide binding]; other site 224308010409 putative Zn2+ binding site [ion binding]; other site 224308010410 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 224308010411 dimer interface [polypeptide binding]; other site 224308010412 conserved gate region; other site 224308010413 putative PBP binding loops; other site 224308010414 ABC-ATPase subunit interface; other site 224308010415 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 224308010416 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 224308010417 dimer interface [polypeptide binding]; other site 224308010418 conserved gate region; other site 224308010419 putative PBP binding loops; other site 224308010420 ABC-ATPase subunit interface; other site 224308010421 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 224308010422 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 224308010423 Walker A/P-loop; other site 224308010424 ATP binding site [chemical binding]; other site 224308010425 Q-loop/lid; other site 224308010426 ABC transporter signature motif; other site 224308010427 Walker B; other site 224308010428 D-loop; other site 224308010429 H-loop/switch region; other site 224308010430 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 224308010431 Predicted transcriptional regulators [Transcription]; Region: COG1510 224308010432 MarR family; Region: MarR_2; pfam12802 224308010433 membrane protein, MarC family; Region: TIGR00427 224308010434 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 224308010435 pentamer interface [polypeptide binding]; other site 224308010436 dodecaamer interface [polypeptide binding]; other site 224308010437 YvbH-like oligomerisation region; Region: YvbH_ext; pfam11724 224308010438 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 224308010439 Double zinc ribbon; Region: DZR; pfam12773 224308010440 Predicted membrane protein [Function unknown]; Region: COG4640 224308010441 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 224308010442 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308010443 Coenzyme A binding pocket [chemical binding]; other site 224308010444 enolase; Provisional; Region: eno; PRK00077 224308010445 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 224308010446 dimer interface [polypeptide binding]; other site 224308010447 metal binding site [ion binding]; metal-binding site 224308010448 substrate binding pocket [chemical binding]; other site 224308010449 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 224308010450 phosphoglyceromutase; Provisional; Region: PRK05434 224308010451 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 224308010452 triosephosphate isomerase; Provisional; Region: PRK14565 224308010453 substrate binding site [chemical binding]; other site 224308010454 dimer interface [polypeptide binding]; other site 224308010455 catalytic triad [active] 224308010456 Phosphoglycerate kinase; Region: PGK; pfam00162 224308010457 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 224308010458 substrate binding site [chemical binding]; other site 224308010459 hinge regions; other site 224308010460 ADP binding site [chemical binding]; other site 224308010461 catalytic site [active] 224308010462 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 224308010463 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 224308010464 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 224308010465 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 224308010466 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 224308010467 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 224308010468 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 224308010469 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 224308010470 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308010471 DNA-binding site [nucleotide binding]; DNA binding site 224308010472 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224308010473 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 224308010474 putative dimerization interface [polypeptide binding]; other site 224308010475 putative ligand binding site [chemical binding]; other site 224308010476 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 224308010477 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 224308010478 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 224308010479 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308010480 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308010481 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 224308010482 dimerization interface [polypeptide binding]; other site 224308010483 EamA-like transporter family; Region: EamA; pfam00892 224308010484 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 224308010485 EamA-like transporter family; Region: EamA; pfam00892 224308010486 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 224308010487 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 224308010488 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 224308010489 active site 224308010490 Uncharacterized conserved protein [Function unknown]; Region: COG1556 224308010491 iron-sulfur cluster-binding protein; Region: TIGR00273 224308010492 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 224308010493 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 224308010494 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 224308010495 Cysteine-rich domain; Region: CCG; pfam02754 224308010496 Cysteine-rich domain; Region: CCG; pfam02754 224308010497 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 224308010498 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 224308010499 active site 224308010500 phosphorylation site [posttranslational modification] 224308010501 intermolecular recognition site; other site 224308010502 dimerization interface [polypeptide binding]; other site 224308010503 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 224308010504 DNA binding residues [nucleotide binding] 224308010505 dimerization interface [polypeptide binding]; other site 224308010506 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 224308010507 Histidine kinase; Region: HisKA_3; pfam07730 224308010508 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 224308010509 ATP binding site [chemical binding]; other site 224308010510 Mg2+ binding site [ion binding]; other site 224308010511 G-X-G motif; other site 224308010512 ABC-2 type transporter; Region: ABC2_membrane; cl17235 224308010513 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 224308010514 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 224308010515 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 224308010516 Walker A/P-loop; other site 224308010517 ATP binding site [chemical binding]; other site 224308010518 Q-loop/lid; other site 224308010519 ABC transporter signature motif; other site 224308010520 Walker B; other site 224308010521 D-loop; other site 224308010522 H-loop/switch region; other site 224308010523 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 224308010524 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 224308010525 catalytic site [active] 224308010526 PAS domain S-box; Region: sensory_box; TIGR00229 224308010527 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 224308010528 putative active site [active] 224308010529 heme pocket [chemical binding]; other site 224308010530 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 224308010531 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 224308010532 Arabinogalactan endo-1,4-beta-galactosidase [Carbohydrate transport and metabolism]; Region: COG3867 224308010533 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 224308010534 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 224308010535 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 224308010536 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 224308010537 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224308010538 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 224308010539 dimer interface [polypeptide binding]; other site 224308010540 conserved gate region; other site 224308010541 putative PBP binding loops; other site 224308010542 ABC-ATPase subunit interface; other site 224308010543 TM2 domain; Region: TM2; pfam05154 224308010544 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 224308010545 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 224308010546 dimer interface [polypeptide binding]; other site 224308010547 conserved gate region; other site 224308010548 ABC-ATPase subunit interface; other site 224308010549 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 224308010550 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 224308010551 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224308010552 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224308010553 DNA binding site [nucleotide binding] 224308010554 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 224308010555 putative dimerization interface [polypeptide binding]; other site 224308010556 putative ligand binding site [chemical binding]; other site 224308010557 Transcriptional regulators [Transcription]; Region: FadR; COG2186 224308010558 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308010559 DNA-binding site [nucleotide binding]; DNA binding site 224308010560 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 224308010561 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 224308010562 L-lactate permease; Region: Lactate_perm; pfam02652 224308010563 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 224308010564 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 224308010565 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 224308010566 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 224308010567 YvfG protein; Region: YvfG; pfam09628 224308010568 Exopolysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: COG5039 224308010569 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 224308010570 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 224308010571 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 224308010572 inhibitor-cofactor binding pocket; inhibition site 224308010573 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308010574 catalytic residue [active] 224308010575 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 224308010576 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 224308010577 putative trimer interface [polypeptide binding]; other site 224308010578 putative CoA binding site [chemical binding]; other site 224308010579 Bacterial sugar transferase; Region: Bac_transf; pfam02397 224308010580 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cd12082 224308010581 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 224308010582 active site 224308010583 Exopolysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: COG5039 224308010584 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 224308010585 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 224308010586 active site 224308010587 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224308010588 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 224308010589 putative ADP-binding pocket [chemical binding]; other site 224308010590 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 224308010591 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 224308010592 active site 224308010593 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 224308010594 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224308010595 putative ADP-binding pocket [chemical binding]; other site 224308010596 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 224308010597 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 224308010598 NAD(P) binding site [chemical binding]; other site 224308010599 homodimer interface [polypeptide binding]; other site 224308010600 substrate binding site [chemical binding]; other site 224308010601 active site 224308010602 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 224308010603 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 224308010604 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 224308010605 Chain length determinant protein; Region: Wzz; cl15801 224308010606 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224308010607 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 224308010608 non-specific DNA binding site [nucleotide binding]; other site 224308010609 salt bridge; other site 224308010610 sequence-specific DNA binding site [nucleotide binding]; other site 224308010611 Anti-repressor SinI; Region: SinI; pfam08671 224308010612 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 224308010613 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 224308010614 substrate binding pocket [chemical binding]; other site 224308010615 catalytic triad [active] 224308010616 Phenolic acid decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3479 224308010617 hypothetical protein; Provisional; Region: PRK00872 224308010618 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 224308010619 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 224308010620 aspartate racemase; Region: asp_race; TIGR00035 224308010621 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 224308010622 Beta-lactamase; Region: Beta-lactamase; pfam00144 224308010623 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 224308010624 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 224308010625 active site 224308010626 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 224308010627 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 224308010628 substrate binding [chemical binding]; other site 224308010629 active site 224308010630 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 224308010631 amino acid transporter; Region: 2A0306; TIGR00909 224308010632 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308010633 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308010634 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 224308010635 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 224308010636 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 224308010637 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 224308010638 FAD binding domain; Region: FAD_binding_4; pfam01565 224308010639 Berberine and berberine like; Region: BBE; pfam08031 224308010640 Patatin [General function prediction only]; Region: COG3621 224308010641 Patatin-like phospholipase; Region: Pat17_PNPLA8_PNPLA9_like1; cd07213 224308010642 active site 224308010643 nucleophile elbow; other site 224308010644 Clp protease; Region: CLP_protease; pfam00574 224308010645 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 224308010646 oligomer interface [polypeptide binding]; other site 224308010647 active site residues [active] 224308010648 beta-phosphoglucomutase; Region: bPGM; TIGR01990 224308010649 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 224308010650 motif II; other site 224308010651 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 224308010652 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 224308010653 Ca binding site [ion binding]; other site 224308010654 active site 224308010655 catalytic site [active] 224308010656 maltose phosphorylase; Provisional; Region: PRK13807 224308010657 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 224308010658 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 224308010659 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 224308010660 Predicted integral membrane protein [Function unknown]; Region: COG5521 224308010661 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224308010662 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 224308010663 dimer interface [polypeptide binding]; other site 224308010664 conserved gate region; other site 224308010665 ABC-ATPase subunit interface; other site 224308010666 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 224308010667 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 224308010668 dimer interface [polypeptide binding]; other site 224308010669 conserved gate region; other site 224308010670 putative PBP binding loops; other site 224308010671 ABC-ATPase subunit interface; other site 224308010672 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 224308010673 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 224308010674 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 224308010675 homodimer interface [polypeptide binding]; other site 224308010676 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 224308010677 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 224308010678 active site 224308010679 homodimer interface [polypeptide binding]; other site 224308010680 catalytic site [active] 224308010681 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224308010682 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224308010683 DNA binding site [nucleotide binding] 224308010684 domain linker motif; other site 224308010685 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 224308010686 ligand binding site [chemical binding]; other site 224308010687 dimerization interface [polypeptide binding]; other site 224308010688 TIGR00730 family protein; Region: TIGR00730 224308010689 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cd11523 224308010690 metal binding site [ion binding]; metal-binding site 224308010691 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 224308010692 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 224308010693 Sulfate transporter family; Region: Sulfate_transp; pfam00916 224308010694 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 224308010695 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 224308010696 active site clefts [active] 224308010697 zinc binding site [ion binding]; other site 224308010698 dimer interface [polypeptide binding]; other site 224308010699 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 224308010700 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 224308010701 dimerization interface [polypeptide binding]; other site 224308010702 ligand binding site [chemical binding]; other site 224308010703 NADP binding site [chemical binding]; other site 224308010704 catalytic site [active] 224308010705 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 224308010706 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 224308010707 Walker A/P-loop; other site 224308010708 ATP binding site [chemical binding]; other site 224308010709 Q-loop/lid; other site 224308010710 ABC transporter signature motif; other site 224308010711 Walker B; other site 224308010712 D-loop; other site 224308010713 H-loop/switch region; other site 224308010714 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224308010715 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 224308010716 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 224308010717 ATP binding site [chemical binding]; other site 224308010718 Mg2+ binding site [ion binding]; other site 224308010719 G-X-G motif; other site 224308010720 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224308010721 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 224308010722 active site 224308010723 phosphorylation site [posttranslational modification] 224308010724 intermolecular recognition site; other site 224308010725 dimerization interface [polypeptide binding]; other site 224308010726 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 224308010727 DNA binding site [nucleotide binding] 224308010728 Lysis protein; Region: Lysis_col; pfam02402 224308010729 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 224308010730 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 224308010731 dimerization domain swap beta strand [polypeptide binding]; other site 224308010732 regulatory protein interface [polypeptide binding]; other site 224308010733 active site 224308010734 regulatory phosphorylation site [posttranslational modification]; other site 224308010735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 224308010736 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 224308010737 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 224308010738 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 224308010739 phosphate binding site [ion binding]; other site 224308010740 putative substrate binding pocket [chemical binding]; other site 224308010741 dimer interface [polypeptide binding]; other site 224308010742 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 224308010743 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 224308010744 putative active site [active] 224308010745 nucleotide binding site [chemical binding]; other site 224308010746 nudix motif; other site 224308010747 putative metal binding site [ion binding]; other site 224308010748 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 224308010749 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 224308010750 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224308010751 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 224308010752 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 224308010753 NlpC/P60 family; Region: NLPC_P60; pfam00877 224308010754 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 224308010755 binding surface 224308010756 TPR motif; other site 224308010757 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 224308010758 TPR motif; other site 224308010759 binding surface 224308010760 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 224308010761 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224308010762 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224308010763 Walker A/P-loop; other site 224308010764 ATP binding site [chemical binding]; other site 224308010765 Q-loop/lid; other site 224308010766 ABC transporter signature motif; other site 224308010767 Walker B; other site 224308010768 D-loop; other site 224308010769 H-loop/switch region; other site 224308010770 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 224308010771 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 224308010772 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 224308010773 metal binding site [ion binding]; metal-binding site 224308010774 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 224308010775 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 224308010776 substrate binding site [chemical binding]; other site 224308010777 glutamase interaction surface [polypeptide binding]; other site 224308010778 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 224308010779 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 224308010780 catalytic residues [active] 224308010781 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 224308010782 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 224308010783 putative active site [active] 224308010784 oxyanion strand; other site 224308010785 catalytic triad [active] 224308010786 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 224308010787 putative active site pocket [active] 224308010788 4-fold oligomerization interface [polypeptide binding]; other site 224308010789 metal binding residues [ion binding]; metal-binding site 224308010790 3-fold/trimer interface [polypeptide binding]; other site 224308010791 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 224308010792 histidinol dehydrogenase; Region: hisD; TIGR00069 224308010793 NAD binding site [chemical binding]; other site 224308010794 dimerization interface [polypeptide binding]; other site 224308010795 product binding site; other site 224308010796 substrate binding site [chemical binding]; other site 224308010797 zinc binding site [ion binding]; other site 224308010798 catalytic residues [active] 224308010799 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 224308010800 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 224308010801 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 224308010802 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 224308010803 dimer interface [polypeptide binding]; other site 224308010804 motif 1; other site 224308010805 active site 224308010806 motif 2; other site 224308010807 motif 3; other site 224308010808 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 224308010809 putative active site [active] 224308010810 Pectate lyase; Region: Pectate_lyase; pfam03211 224308010811 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 224308010812 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 224308010813 CoA binding site [chemical binding]; other site 224308010814 active site 224308010815 pyrophosphatase PpaX; Provisional; Region: PRK13288 224308010816 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 224308010817 motif II; other site 224308010818 Nucleoside recognition; Region: Gate; pfam07670 224308010819 Nucleoside recognition; Region: Gate; pfam07670 224308010820 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 224308010821 HPr kinase/phosphorylase; Provisional; Region: PRK05428 224308010822 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 224308010823 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 224308010824 Hpr binding site; other site 224308010825 active site 224308010826 homohexamer subunit interaction site [polypeptide binding]; other site 224308010827 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 224308010828 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 224308010829 active site 224308010830 dimer interface [polypeptide binding]; other site 224308010831 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 224308010832 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 224308010833 active site 224308010834 trimer interface [polypeptide binding]; other site 224308010835 allosteric site; other site 224308010836 active site lid [active] 224308010837 hexamer (dimer of trimers) interface [polypeptide binding]; other site 224308010838 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 224308010839 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308010840 DNA-binding site [nucleotide binding]; DNA binding site 224308010841 UTRA domain; Region: UTRA; pfam07702 224308010842 Lamin Tail Domain; Region: LTD; pfam00932 224308010843 Bacillus subtilis YvnB and related proteins, metallophosphatase domain; Region: MPP_YvnB; cd07399 224308010844 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 224308010845 putative active site [active] 224308010846 putative metal binding site [ion binding]; other site 224308010847 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308010848 MarR family; Region: MarR; pfam01047 224308010849 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 224308010850 Cytochrome P450; Region: p450; cl12078 224308010851 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308010852 MarR family; Region: MarR; pfam01047 224308010853 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 224308010854 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308010855 putative substrate translocation pore; other site 224308010856 Predicted membrane protein [Function unknown]; Region: COG1950 224308010857 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 224308010858 Uncharacterized conserved protein [Function unknown]; Region: COG3595 224308010859 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 224308010860 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 224308010861 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 224308010862 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 224308010863 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 224308010864 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 224308010865 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 224308010866 excinuclease ABC subunit B; Provisional; Region: PRK05298 224308010867 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 224308010868 ATP binding site [chemical binding]; other site 224308010869 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 224308010870 nucleotide binding region [chemical binding]; other site 224308010871 ATP-binding site [chemical binding]; other site 224308010872 Ultra-violet resistance protein B; Region: UvrB; pfam12344 224308010873 Uncharacterized protein conserved in bacteria (DUF2198); Region: DUF2198; cl11559 224308010874 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 224308010875 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 224308010876 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 224308010877 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308010878 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308010879 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 224308010880 putative substrate translocation pore; other site 224308010881 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 224308010882 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 224308010883 Evidence 1a: Function experimentally demonstrated in the studied strain; PubMedId: 15066026, 16030230; Product type cp: cell process 224308010884 Evidence 2a: Function of homologous gene experimentally demonstrated in an other organism; Product type cp: cell process 224308010885 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 224308010886 C-terminal peptidase (prc); Region: prc; TIGR00225 224308010887 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 224308010888 protein binding site [polypeptide binding]; other site 224308010889 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 224308010890 Catalytic dyad [active] 224308010891 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224308010892 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 224308010893 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 224308010894 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 224308010895 ATP-binding cassette domain of the cell division transporter; Region: ABC_FtsE_transporter; cd03292 224308010896 Walker A/P-loop; other site 224308010897 ATP binding site [chemical binding]; other site 224308010898 Q-loop/lid; other site 224308010899 ABC transporter signature motif; other site 224308010900 Walker B; other site 224308010901 D-loop; other site 224308010902 H-loop/switch region; other site 224308010903 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 224308010904 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 224308010905 Uncharacterized conserved protein [Function unknown]; Region: COG1284 224308010906 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224308010907 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224308010908 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 224308010909 peptide chain release factor 2; Validated; Region: prfB; PRK00578 224308010910 This domain is found in peptide chain release factors; Region: PCRF; smart00937 224308010911 RF-1 domain; Region: RF-1; pfam00472 224308010912 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 224308010913 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 224308010914 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 224308010915 nucleotide binding region [chemical binding]; other site 224308010916 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 224308010917 ATP-binding site [chemical binding]; other site 224308010918 SEC-C motif; Region: SEC-C; pfam02810 224308010919 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 224308010920 30S subunit binding site; other site 224308010921 Flagellar protein FliT; Region: FliT; pfam05400 224308010922 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 224308010923 flagellar capping protein; Validated; Region: fliD; PRK07737 224308010924 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 224308010925 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 224308010926 flagellar protein FlaG; Provisional; Region: PRK07738 224308010927 flagellin; Provisional; Region: PRK12804 224308010928 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 224308010929 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 224308010930 carbon storage regulator; Provisional; Region: PRK01712 224308010931 flagellar assembly protein FliW; Provisional; Region: PRK13285 224308010932 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 224308010933 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 224308010934 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 224308010935 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 224308010936 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 224308010937 FlgN protein; Region: FlgN; pfam05130 224308010938 Negative regulator of flagellin synthesis (anti-sigma28 factor) [Transcription / Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgM; COG2747 224308010939 flagellar operon protein TIGR03826; Region: YvyF 224308010940 comF family protein; Region: comF; TIGR00201 224308010941 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224308010942 active site 224308010943 Late competence development protein ComFB; Region: ComFB; pfam10719 224308010944 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 224308010945 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 224308010946 ATP binding site [chemical binding]; other site 224308010947 putative Mg++ binding site [ion binding]; other site 224308010948 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 224308010949 nucleotide binding region [chemical binding]; other site 224308010950 ATP-binding site [chemical binding]; other site 224308010951 EDD domain protein, DegV family; Region: DegV; TIGR00762 224308010952 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 224308010953 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 224308010954 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 224308010955 active site 224308010956 phosphorylation site [posttranslational modification] 224308010957 intermolecular recognition site; other site 224308010958 dimerization interface [polypeptide binding]; other site 224308010959 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 224308010960 DNA binding residues [nucleotide binding] 224308010961 dimerization interface [polypeptide binding]; other site 224308010962 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 224308010963 Histidine kinase; Region: HisKA_3; pfam07730 224308010964 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 224308010965 ATP binding site [chemical binding]; other site 224308010966 Mg2+ binding site [ion binding]; other site 224308010967 G-X-G motif; other site 224308010968 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 224308010969 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 224308010970 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 224308010971 Transcriptional regulator [Transcription]; Region: LytR; COG1316 224308010972 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 224308010973 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 224308010974 Mg++ binding site [ion binding]; other site 224308010975 putative catalytic motif [active] 224308010976 substrate binding site [chemical binding]; other site 224308010977 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: GT1_like_1; cd04950 224308010978 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224308010979 putative homodimer interface [polypeptide binding]; other site 224308010980 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 224308010981 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 224308010982 active site 224308010983 Chain length determinant protein; Region: Wzz; pfam02706 224308010984 Herpesvirus latent membrane protein 1 (LMP1); Region: Herpes_LMP1; pfam05297 224308010985 O-Antigen ligase; Region: Wzy_C; pfam04932 224308010986 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 224308010987 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 224308010988 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 224308010989 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 224308010990 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224308010991 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 224308010992 colanic acid exporter; Provisional; Region: PRK10459 224308010993 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 224308010994 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId: 7704262; Product type pf : factor 224308010995 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId: 10048024, 11994144; Product type pe: enzyme 224308010996 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 224308010997 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 224308010998 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 224308010999 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 224308011000 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 224308011001 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 224308011002 active site 224308011003 metal binding site [ion binding]; metal-binding site 224308011004 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 224308011005 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 224308011006 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 224308011007 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 224308011008 Stage II sporulation protein; Region: SpoIID; pfam08486 224308011009 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 224308011010 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 224308011011 membrane-bound transcriptional regulator LytR; Provisional; Region: PRK09379 224308011012 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 224308011013 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 224308011014 active site 224308011015 homodimer interface [polypeptide binding]; other site 224308011016 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 224308011017 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 224308011018 active site 224308011019 tetramer interface; other site 224308011020 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId: 7704262; Product type pe : enzyme 224308011021 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 224308011022 active site 224308011023 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 224308011024 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 224308011025 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 224308011026 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 224308011027 active site 224308011028 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId: 7704262; Product type pe : enzyme 224308011029 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe: enzyme 224308011030 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 224308011031 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 224308011032 Walker A/P-loop; other site 224308011033 ATP binding site [chemical binding]; other site 224308011034 Q-loop/lid; other site 224308011035 ABC transporter signature motif; other site 224308011036 Walker B; other site 224308011037 D-loop; other site 224308011038 H-loop/switch region; other site 224308011039 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 224308011040 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 224308011041 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 224308011042 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 224308011043 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 224308011044 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 224308011045 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224308011046 glycerol-3-phosphate cytidylyltransferase; Region: G3P_Cytidylyltransferase; cd02171 224308011047 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 224308011048 active site 224308011049 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 224308011050 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 224308011051 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 224308011052 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 224308011053 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 224308011054 Bacterial SH3 domain; Region: SH3_3; pfam08239 224308011055 Lysozyme subfamily 2; Region: LYZ2; smart00047 224308011056 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 224308011057 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 224308011058 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 224308011059 Spore germination protein; Region: Spore_permease; pfam03845 224308011060 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 224308011061 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 224308011062 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 224308011063 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 224308011064 putative substrate translocation pore; other site 224308011065 Transcriptional regulator [Transcription]; Region: LytR; COG1316 224308011066 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 224308011067 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 224308011068 active site 224308011069 motif I; other site 224308011070 motif II; other site 224308011071 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 224308011072 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 224308011073 NlpC/P60 family; Region: NLPC_P60; pfam00877 224308011074 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 224308011075 NlpC/P60 family; Region: NLPC_P60; pfam00877 224308011076 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 224308011077 NlpC/P60 family; Region: NLPC_P60; pfam00877 224308011078 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 224308011079 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 224308011080 putative active site [active] 224308011081 putative metal binding site [ion binding]; other site 224308011082 poly-gamma-glutamate biosynthesis protein PgsC/CapC; Region: poly_gGlu_PgsC; TIGR04011 224308011083 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 224308011084 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 224308011085 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224308011086 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224308011087 DNA binding site [nucleotide binding] 224308011088 domain linker motif; other site 224308011089 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224308011090 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 224308011091 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 224308011092 substrate binding site [chemical binding]; other site 224308011093 dimer interface [polypeptide binding]; other site 224308011094 ATP binding site [chemical binding]; other site 224308011095 D-ribose pyranase; Provisional; Region: PRK11797 224308011096 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 224308011097 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 224308011098 Walker A/P-loop; other site 224308011099 ATP binding site [chemical binding]; other site 224308011100 Q-loop/lid; other site 224308011101 ABC transporter signature motif; other site 224308011102 Walker B; other site 224308011103 D-loop; other site 224308011104 H-loop/switch region; other site 224308011105 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 224308011106 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224308011107 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 224308011108 TM-ABC transporter signature motif; other site 224308011109 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 224308011110 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 224308011111 ligand binding site [chemical binding]; other site 224308011112 dimerization interface [polypeptide binding]; other site 224308011113 Bacterial SH3 domain homologues; Region: SH3b; smart00287 224308011114 Bacterial SH3 domain homologues; Region: SH3b; smart00287 224308011115 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 224308011116 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 224308011117 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 224308011118 alpha-acetolactate decarboxylase; Region: acetolac_decarb; TIGR01252 224308011119 acetolactate synthase; Reviewed; Region: PRK08617 224308011120 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 224308011121 PYR/PP interface [polypeptide binding]; other site 224308011122 dimer interface [polypeptide binding]; other site 224308011123 TPP binding site [chemical binding]; other site 224308011124 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 224308011125 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 224308011126 TPP-binding site [chemical binding]; other site 224308011127 dimer interface [polypeptide binding]; other site 224308011128 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 224308011129 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308011130 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 224308011131 putative dimerization interface [polypeptide binding]; other site 224308011132 putative substrate binding pocket [chemical binding]; other site 224308011133 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 224308011134 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 224308011135 transmembrane helices; other site 224308011136 CotH protein; Region: CotH; pfam08757 224308011137 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 224308011138 Domain of unknown function (DUF4181); Region: DUF4181; pfam13789 224308011139 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 224308011140 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 224308011141 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 224308011142 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 224308011143 putative DNA binding site [nucleotide binding]; other site 224308011144 putative Zn2+ binding site [ion binding]; other site 224308011145 AsnC family; Region: AsnC_trans_reg; pfam01037 224308011146 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 224308011147 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 224308011148 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 224308011149 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 224308011150 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308011151 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308011152 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 224308011153 dimerization interface [polypeptide binding]; other site 224308011154 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 224308011155 Active_site [active] 224308011156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 224308011157 Uncharacterized conserved protein [Function unknown]; Region: COG5444 224308011158 A pre-toxin domain with the TG motif; Region: PT-TG; pfam14449 224308011159 YwqJ-like deaminase; Region: YwqJ-deaminase; pfam14431 224308011160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3878 224308011161 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 224308011162 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 224308011163 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 224308011164 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 224308011165 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 224308011166 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 224308011167 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 224308011168 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 224308011169 Chain length determinant protein; Region: Wzz; cl15801 224308011170 SWIM zinc finger; Region: SWIM; pfam04434 224308011171 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 224308011172 SNF2 Helicase protein; Region: DUF3670; pfam12419 224308011173 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 224308011174 ATP binding site [chemical binding]; other site 224308011175 putative Mg++ binding site [ion binding]; other site 224308011176 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 224308011177 nucleotide binding region [chemical binding]; other site 224308011178 ATP-binding site [chemical binding]; other site 224308011179 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 224308011180 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 224308011181 active site 224308011182 motif I; other site 224308011183 motif II; other site 224308011184 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 224308011185 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 224308011186 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 224308011187 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 224308011188 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 224308011189 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 224308011190 dimer interface [polypeptide binding]; other site 224308011191 ssDNA binding site [nucleotide binding]; other site 224308011192 tetramer (dimer of dimers) interface [polypeptide binding]; other site 224308011193 YwpF-like protein; Region: YwpF; pfam14183 224308011194 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 surface protein substrate is...; Region: Sortase; cl09098 224308011195 active site 224308011196 catalytic site [active] 224308011197 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 224308011198 active site 224308011199 dimerization interface [polypeptide binding]; other site 224308011200 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 224308011201 Histidine kinase; Region: His_kinase; pfam06580 224308011202 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 224308011203 ATP binding site [chemical binding]; other site 224308011204 Mg2+ binding site [ion binding]; other site 224308011205 G-X-G motif; other site 224308011206 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13955 224308011207 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 224308011208 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 224308011209 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 224308011210 binding surface 224308011211 TPR motif; other site 224308011212 Tetratricopeptide repeat; Region: TPR_16; pfam13432 224308011213 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 224308011214 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 224308011215 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 224308011216 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 224308011217 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 224308011218 rod shape-determining protein Mbl; Provisional; Region: PRK13928 224308011219 MreB and similar proteins; Region: MreB_like; cd10225 224308011220 nucleotide binding site [chemical binding]; other site 224308011221 Mg binding site [ion binding]; other site 224308011222 putative protofilament interaction site [polypeptide binding]; other site 224308011223 RodZ interaction site [polypeptide binding]; other site 224308011224 Stage III sporulation protein D; Region: SpoIIID; pfam12116 224308011225 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308011226 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 224308011227 putative Zn2+ binding site [ion binding]; other site 224308011228 putative DNA binding site [nucleotide binding]; other site 224308011229 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308011230 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 224308011231 putative substrate translocation pore; other site 224308011232 Right handed beta helix region; Region: Beta_helix; pfam13229 224308011233 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 224308011234 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 224308011235 Na binding site [ion binding]; other site 224308011236 putative substrate binding site [chemical binding]; other site 224308011237 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 224308011238 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308011239 putative substrate translocation pore; other site 224308011240 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 224308011241 Isochorismatase family; Region: Isochorismatase; pfam00857 224308011242 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 224308011243 catalytic triad [active] 224308011244 conserved cis-peptide bond; other site 224308011245 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 224308011246 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 224308011247 Nitrogen regulatory protein P-II; Region: P-II; smart00938 224308011248 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 224308011249 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 224308011250 active site 224308011251 VanZ like family; Region: VanZ; pfam04892 224308011252 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 224308011253 Peptidase family M23; Region: Peptidase_M23; pfam01551 224308011254 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 224308011255 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308011256 Coenzyme A binding pocket [chemical binding]; other site 224308011257 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 224308011258 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 224308011259 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 224308011260 putative active site [active] 224308011261 catalytic site [active] 224308011262 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 224308011263 putative active site [active] 224308011264 catalytic site [active] 224308011265 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 224308011266 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 224308011267 DNA binding residues [nucleotide binding] 224308011268 dimer interface [polypeptide binding]; other site 224308011269 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 224308011270 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 224308011271 NADH(P)-binding; Region: NAD_binding_10; pfam13460 224308011272 NAD binding site [chemical binding]; other site 224308011273 substrate binding site [chemical binding]; other site 224308011274 putative active site [active] 224308011275 Predicted transcriptional regulator [Transcription]; Region: COG1959 224308011276 Transcriptional regulator; Region: Rrf2; pfam02082 224308011277 urease subunit alpha; Reviewed; Region: ureC; PRK13207 224308011278 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 224308011279 subunit interactions [polypeptide binding]; other site 224308011280 active site 224308011281 flap region; other site 224308011282 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 224308011283 gamma-beta subunit interface [polypeptide binding]; other site 224308011284 alpha-beta subunit interface [polypeptide binding]; other site 224308011285 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 224308011286 alpha-gamma subunit interface [polypeptide binding]; other site 224308011287 beta-gamma subunit interface [polypeptide binding]; other site 224308011288 Evidence 4: Homologs of previously reported genes of unknown function 224308011289 Evidence 4: Homologs of previously reported genes of unknown function 224308011290 CsbD-like; Region: CsbD; pfam05532 224308011291 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 224308011292 binding surface 224308011293 TPR motif; other site 224308011294 Tetratricopeptide repeat; Region: TPR_12; pfam13424 224308011295 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 224308011296 binding surface 224308011297 TPR motif; other site 224308011298 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 224308011299 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 224308011300 FeS/SAM binding site; other site 224308011301 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 224308011302 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 224308011303 VWA ywmD type: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...; Region: vWA_ywmD_type; cd01456 224308011304 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 224308011305 metal ion-dependent adhesion site (MIDAS); other site 224308011306 VWA ywmD type: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...; Region: vWA_ywmD_type; cd01456 224308011307 metal ion-dependent adhesion site (MIDAS); other site 224308011308 stage II sporulation protein D; Region: spore_II_D; TIGR02870 224308011309 Stage II sporulation protein; Region: SpoIID; pfam08486 224308011310 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 224308011311 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 224308011312 hinge; other site 224308011313 active site 224308011314 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 224308011315 Predicted membrane protein [Function unknown]; Region: COG4836 224308011316 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 224308011317 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 224308011318 gamma subunit interface [polypeptide binding]; other site 224308011319 epsilon subunit interface [polypeptide binding]; other site 224308011320 LBP interface [polypeptide binding]; other site 224308011321 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 224308011322 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 224308011323 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 224308011324 alpha subunit interaction interface [polypeptide binding]; other site 224308011325 Walker A motif; other site 224308011326 ATP binding site [chemical binding]; other site 224308011327 Walker B motif; other site 224308011328 inhibitor binding site; inhibition site 224308011329 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 224308011330 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 224308011331 core domain interface [polypeptide binding]; other site 224308011332 delta subunit interface [polypeptide binding]; other site 224308011333 epsilon subunit interface [polypeptide binding]; other site 224308011334 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 224308011335 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 224308011336 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 224308011337 beta subunit interaction interface [polypeptide binding]; other site 224308011338 Walker A motif; other site 224308011339 ATP binding site [chemical binding]; other site 224308011340 Walker B motif; other site 224308011341 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 224308011342 ATP synthase, F1 delta subunit; Region: ATP_synt_delta; TIGR01145 224308011343 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 224308011344 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 224308011345 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 224308011346 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 224308011347 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 224308011348 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 224308011349 ATP synthase I chain; Region: ATP_synt_I; pfam03899 224308011350 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224308011351 active site 224308011352 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 224308011353 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 224308011354 dimer interface [polypeptide binding]; other site 224308011355 active site 224308011356 glycine-pyridoxal phosphate binding site [chemical binding]; other site 224308011357 folate binding site [chemical binding]; other site 224308011358 hypothetical protein; Provisional; Region: PRK13690 224308011359 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 224308011360 Low molecular weight phosphatase family; Region: LMWPc; cd00115 224308011361 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 224308011362 active site 224308011363 Predicted membrane protein [Function unknown]; Region: COG1971 224308011364 Domain of unknown function DUF; Region: DUF204; pfam02659 224308011365 Domain of unknown function DUF; Region: DUF204; pfam02659 224308011366 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 224308011367 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 224308011368 N-acetylglutamate synthase and related acetyltransferases [Amino acid transport and metabolism]; Region: ArgA; COG1246 224308011369 stage II sporulation protein R; Region: spore_II_R; TIGR02837 224308011370 HemK family putative methylases; Region: hemK_fam; TIGR00536 224308011371 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 224308011372 S-adenosylmethionine binding site [chemical binding]; other site 224308011373 peptide chain release factor 1; Validated; Region: prfA; PRK00591 224308011374 This domain is found in peptide chain release factors; Region: PCRF; smart00937 224308011375 RF-1 domain; Region: RF-1; pfam00472 224308011376 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 224308011377 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308011378 putative metal binding site [ion binding]; other site 224308011379 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 224308011380 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 224308011381 DNA binding residues [nucleotide binding] 224308011382 he Auxin Efflux Carrier (AEC) Family; Region: 2a69; TIGR00946 224308011383 malate dehydrogenase; Provisional; Region: PRK13529 224308011384 Malic enzyme, N-terminal domain; Region: malic; pfam00390 224308011385 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 224308011386 NAD(P) binding site [chemical binding]; other site 224308011387 thymidine kinase; Provisional; Region: PRK04296 224308011388 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 224308011389 transcription termination factor Rho; Provisional; Region: rho; PRK09376 224308011390 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 224308011391 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 224308011392 RNA binding site [nucleotide binding]; other site 224308011393 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 224308011394 multimer interface [polypeptide binding]; other site 224308011395 Walker A motif; other site 224308011396 ATP binding site [chemical binding]; other site 224308011397 Walker B motif; other site 224308011398 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 224308011399 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 224308011400 putative active site [active] 224308011401 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 224308011402 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 224308011403 hinge; other site 224308011404 active site 224308011405 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 224308011406 active site 224308011407 intersubunit interactions; other site 224308011408 catalytic residue [active] 224308011409 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 224308011410 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 224308011411 intersubunit interface [polypeptide binding]; other site 224308011412 active site 224308011413 zinc binding site [ion binding]; other site 224308011414 Na+ binding site [ion binding]; other site 224308011415 Response regulator receiver domain; Region: Response_reg; pfam00072 224308011416 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 224308011417 active site 224308011418 phosphorylation site [posttranslational modification] 224308011419 intermolecular recognition site; other site 224308011420 dimerization interface [polypeptide binding]; other site 224308011421 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 224308011422 CTP synthetase; Validated; Region: pyrG; PRK05380 224308011423 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 224308011424 Catalytic site [active] 224308011425 active site 224308011426 UTP binding site [chemical binding]; other site 224308011427 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 224308011428 active site 224308011429 putative oxyanion hole; other site 224308011430 catalytic triad [active] 224308011431 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 224308011432 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 224308011433 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 224308011434 FAD binding site [chemical binding]; other site 224308011435 homotetramer interface [polypeptide binding]; other site 224308011436 substrate binding pocket [chemical binding]; other site 224308011437 catalytic base [active] 224308011438 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 224308011439 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 224308011440 Cysteine-rich domain; Region: CCG; pfam02754 224308011441 Cysteine-rich domain; Region: CCG; pfam02754 224308011442 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 224308011443 putative active site [active] 224308011444 catalytic site [active] 224308011445 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 224308011446 PLD-like domain; Region: PLDc_2; pfam13091 224308011447 putative active site [active] 224308011448 catalytic site [active] 224308011449 UV damage endonuclease UvdE; Region: uvde; TIGR00629 224308011450 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 224308011451 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; cl17426 224308011452 folate binding site [chemical binding]; other site 224308011453 NADP+ binding site [chemical binding]; other site 224308011454 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 224308011455 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224308011456 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 224308011457 Walker A/P-loop; other site 224308011458 ATP binding site [chemical binding]; other site 224308011459 Q-loop/lid; other site 224308011460 ABC transporter signature motif; other site 224308011461 Walker B; other site 224308011462 D-loop; other site 224308011463 H-loop/switch region; other site 224308011464 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 224308011465 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 224308011466 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 224308011467 putative active site [active] 224308011468 catalytic site [active] 224308011469 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 224308011470 putative active site [active] 224308011471 catalytic site [active] 224308011472 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 224308011473 nitrate reductase molybdenum cofactor assembly chaperone; Region: narJ; TIGR00684 224308011474 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 224308011475 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 224308011476 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 224308011477 [4Fe-4S] binding site [ion binding]; other site 224308011478 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 224308011479 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 224308011480 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 224308011481 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 224308011482 molybdopterin cofactor binding site; other site 224308011483 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 224308011484 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; cl00047 224308011485 ligand binding site [chemical binding]; other site 224308011486 flexible hinge region; other site 224308011487 YwiC-like protein; Region: YwiC; pfam14256 224308011488 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 224308011489 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 224308011490 ligand binding site [chemical binding]; other site 224308011491 flexible hinge region; other site 224308011492 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 224308011493 putative switch regulator; other site 224308011494 non-specific DNA interactions [nucleotide binding]; other site 224308011495 DNA binding site [nucleotide binding] 224308011496 sequence specific DNA binding site [nucleotide binding]; other site 224308011497 putative cAMP binding site [chemical binding]; other site 224308011498 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 224308011499 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 224308011500 putative substrate translocation pore; other site 224308011501 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 224308011502 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 224308011503 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 224308011504 active site 224308011505 HIGH motif; other site 224308011506 KMSK motif region; other site 224308011507 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 224308011508 tRNA binding surface [nucleotide binding]; other site 224308011509 anticodon binding site; other site 224308011510 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4506 224308011511 Bacteriocin subtilosin A; Region: Subtilosin_A; pfam11420 224308011512 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 224308011513 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 224308011514 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 224308011515 FeS/SAM binding site; other site 224308011516 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 224308011517 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 224308011518 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 224308011519 Walker A/P-loop; other site 224308011520 ATP binding site [chemical binding]; other site 224308011521 Q-loop/lid; other site 224308011522 ABC transporter signature motif; other site 224308011523 Walker B; other site 224308011524 D-loop; other site 224308011525 H-loop/switch region; other site 224308011526 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 224308011527 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 224308011528 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 224308011529 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 224308011530 Uncharacterized conserved protein [Function unknown]; Region: COG3391 224308011531 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 224308011532 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 224308011533 Uncharacterized conserved protein [Function unknown]; Region: COG3391 224308011534 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 224308011535 binding surface 224308011536 TPR motif; other site 224308011537 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 224308011538 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 224308011539 TPR motif; other site 224308011540 binding surface 224308011541 Tetratricopeptide repeat; Region: TPR_12; pfam13424 224308011542 Rap-phr extracellular signalling; Region: PhrC_PhrF; pfam11131 224308011543 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 224308011544 putative deacylase active site [active] 224308011545 agmatinase; Region: agmatinase; TIGR01230 224308011546 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 224308011547 putative active site [active] 224308011548 Mn binding site [ion binding]; other site 224308011549 spermidine synthase; Provisional; Region: PRK00811 224308011550 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 224308011551 Transglycosylase; Region: Transgly; pfam00912 224308011552 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 224308011553 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 224308011554 YwhD family; Region: YwhD; pfam08741 224308011555 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 224308011556 Peptidase family M50; Region: Peptidase_M50; pfam02163 224308011557 active site 224308011558 putative substrate binding region [chemical binding]; other site 224308011559 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 224308011560 active site 1 [active] 224308011561 dimer interface [polypeptide binding]; other site 224308011562 hexamer interface [polypeptide binding]; other site 224308011563 active site 2 [active] 224308011564 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308011565 MarR family; Region: MarR; pfam01047 224308011566 MarR family; Region: MarR_2; cl17246 224308011567 threonyl-tRNA synthetase; Reviewed; Region: PRK12444 224308011568 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 224308011569 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 224308011570 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 224308011571 active site 224308011572 dimer interface [polypeptide binding]; other site 224308011573 motif 1; other site 224308011574 motif 2; other site 224308011575 motif 3; other site 224308011576 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 224308011577 anticodon binding site; other site 224308011578 benzoate transport; Region: 2A0115; TIGR00895 224308011579 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 224308011580 putative substrate translocation pore; other site 224308011581 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 224308011582 Rrf2 family protein; Region: rrf2_super; TIGR00738 224308011583 Transcriptional regulator; Region: Rrf2; pfam02082 224308011584 Uncharacterized conserved protein [Function unknown]; Region: COG3465 224308011585 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 224308011586 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 224308011587 Zn2+ binding site [ion binding]; other site 224308011588 Mg2+ binding site [ion binding]; other site 224308011589 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 224308011590 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 224308011591 EamA-like transporter family; Region: EamA; pfam00892 224308011592 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 224308011593 EamA-like transporter family; Region: EamA; pfam00892 224308011594 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 224308011595 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308011596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308011597 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 224308011598 putative dimerization interface [polypeptide binding]; other site 224308011599 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 224308011600 putative heme peroxidase; Provisional; Region: PRK12276 224308011601 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 224308011602 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 224308011603 putative NAD(P) binding site [chemical binding]; other site 224308011604 putative active site [active] 224308011605 transaminase; Reviewed; Region: PRK08068 224308011606 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 224308011607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308011608 homodimer interface [polypeptide binding]; other site 224308011609 catalytic residue [active] 224308011610 H+ Antiporter protein; Region: 2A0121; TIGR00900 224308011611 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 224308011612 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 224308011613 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 224308011614 classical (c) SDRs; Region: SDR_c; cd05233 224308011615 NAD(P) binding site [chemical binding]; other site 224308011616 active site 224308011617 Cupin domain; Region: Cupin_2; pfam07883 224308011618 Cupin domain; Region: Cupin_2; pfam07883 224308011619 Prephenate dehydratase; Region: PDT; pfam00800 224308011620 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 224308011621 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 224308011622 putative substrate translocation pore; other site 224308011623 S-methylmethionine transporter; Provisional; Region: PRK11387 224308011624 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 224308011625 putative metal binding site [ion binding]; other site 224308011626 putative dimer interface [polypeptide binding]; other site 224308011627 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 224308011628 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 224308011629 Glutamate binding site [chemical binding]; other site 224308011630 homodimer interface [polypeptide binding]; other site 224308011631 NAD binding site [chemical binding]; other site 224308011632 catalytic residues [active] 224308011633 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 224308011634 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 224308011635 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 224308011636 NAD(P) binding site [chemical binding]; other site 224308011637 type VII secretion-associated protein, Rv3446c family, C-terminal domain; Region: T7SS_Rv3446c; TIGR03931 224308011638 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 224308011639 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 224308011640 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 224308011641 NADP binding site [chemical binding]; other site 224308011642 active site 224308011643 putative substrate binding site [chemical binding]; other site 224308011644 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 224308011645 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 224308011646 NAD binding site [chemical binding]; other site 224308011647 substrate binding site [chemical binding]; other site 224308011648 homodimer interface [polypeptide binding]; other site 224308011649 active site 224308011650 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 224308011651 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 224308011652 substrate binding site; other site 224308011653 tetramer interface; other site 224308011654 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 224308011655 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 224308011656 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 224308011657 ligand binding site; other site 224308011658 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 224308011659 NeuB family; Region: NeuB; pfam03102 224308011660 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 224308011661 NeuB binding interface [polypeptide binding]; other site 224308011662 putative substrate binding site [chemical binding]; other site 224308011663 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 224308011664 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308011665 Coenzyme A binding pocket [chemical binding]; other site 224308011666 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 224308011667 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 224308011668 inhibitor-cofactor binding pocket; inhibition site 224308011669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308011670 catalytic residue [active] 224308011671 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 224308011672 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 224308011673 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 224308011674 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 224308011675 active site 224308011676 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; pfam09671 224308011677 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 224308011678 Permease family; Region: Xan_ur_permease; pfam00860 224308011679 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 224308011680 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 224308011681 NAD(P) binding site [chemical binding]; other site 224308011682 catalytic residues [active] 224308011683 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 224308011684 ligand binding site [chemical binding]; other site 224308011685 active site 224308011686 UGI interface [polypeptide binding]; other site 224308011687 catalytic site [active] 224308011688 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 224308011689 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 224308011690 active site 224308011691 Predicted transcriptional regulators [Transcription]; Region: COG1695 224308011692 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 224308011693 putative DNA binding site [nucleotide binding]; other site 224308011694 putative Zn2+ binding site [ion binding]; other site 224308011695 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 224308011696 dimer interface [polypeptide binding]; other site 224308011697 substrate binding site [chemical binding]; other site 224308011698 ATP binding site [chemical binding]; other site 224308011699 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 224308011700 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 224308011701 substrate binding [chemical binding]; other site 224308011702 active site 224308011703 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 224308011704 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 224308011705 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 224308011706 active site turn [active] 224308011707 phosphorylation site [posttranslational modification] 224308011708 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 224308011709 formate/nitrite transporter; Region: fnt; TIGR00790 224308011710 transcriptional antiterminator BglG; Provisional; Region: PRK09772 224308011711 CAT RNA binding domain; Region: CAT_RBD; smart01061 224308011712 PRD domain; Region: PRD; pfam00874 224308011713 PRD domain; Region: PRD; pfam00874 224308011714 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 224308011715 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 224308011716 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 224308011717 putative active site [active] 224308011718 catalytic triad [active] 224308011719 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 224308011720 PA/protease domain interface [polypeptide binding]; other site 224308011721 putative integrin binding motif; other site 224308011722 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 224308011723 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 224308011724 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 224308011725 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 224308011726 Bacterial protein of unknown function (HtrL_YibB); Region: HtrL_YibB; cl08171 224308011727 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 224308011728 dimer interface [polypeptide binding]; other site 224308011729 FMN binding site [chemical binding]; other site 224308011730 NADPH bind site [chemical binding]; other site 224308011731 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 224308011732 cytochrome aa3 quinol oxidase, subunit IV; Region: QoxD; TIGR02901 224308011733 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 224308011734 Subunit I/III interface [polypeptide binding]; other site 224308011735 Subunit III/IV interface [polypeptide binding]; other site 224308011736 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 224308011737 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 224308011738 D-pathway; other site 224308011739 Putative ubiquinol binding site [chemical binding]; other site 224308011740 Low-spin heme (heme b) binding site [chemical binding]; other site 224308011741 Putative water exit pathway; other site 224308011742 Binuclear center (heme o3/CuB) [ion binding]; other site 224308011743 K-pathway; other site 224308011744 Putative proton exit pathway; other site 224308011745 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 224308011746 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 224308011747 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 224308011748 Predicted membrane protein [Function unknown]; Region: COG2261 224308011749 Galactose-1-phosphate uridyltransferase [Carbohydrate transport and metabolism]; Region: GalT; COG4468 224308011750 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 224308011751 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 224308011752 galactokinase; Provisional; Region: PRK05322 224308011753 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 224308011754 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 224308011755 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 224308011756 Predicted membrane protein [Function unknown]; Region: COG2246 224308011757 GtrA-like protein; Region: GtrA; pfam04138 224308011758 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308011759 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308011760 Anti-repressor SinI; Region: SinI; pfam08671 224308011761 Predicted membrane protein [Function unknown]; Region: COG3162 224308011762 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 224308011763 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 224308011764 Na binding site [ion binding]; other site 224308011765 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 224308011766 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 224308011767 catalytic residues [active] 224308011768 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 224308011769 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 224308011770 Predicted periplasmic lipoprotein involved in iron transport [Inorganic ion transport and metabolism]; Region: COG2822 224308011771 Imelysin; Region: Peptidase_M75; pfam09375 224308011772 FTR1 family protein; Region: TIGR00145 224308011773 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 224308011774 thiamine phosphate binding site [chemical binding]; other site 224308011775 active site 224308011776 pyrophosphate binding site [ion binding]; other site 224308011777 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 224308011778 substrate binding site [chemical binding]; other site 224308011779 multimerization interface [polypeptide binding]; other site 224308011780 ATP binding site [chemical binding]; other site 224308011781 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308011782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308011783 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 224308011784 putative dimerization interface [polypeptide binding]; other site 224308011785 holin-like protein; Validated; Region: PRK01658 224308011786 TIGR00659 family protein; Region: TIGR00659 224308011787 sugar efflux transporter; Region: 2A0120; TIGR00899 224308011788 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 224308011789 putative substrate translocation pore; other site 224308011790 conserved hypothetical protein; Region: TIGR03833 224308011791 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 224308011792 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 224308011793 putative RNA binding site [nucleotide binding]; other site 224308011794 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 224308011795 S-adenosylmethionine binding site [chemical binding]; other site 224308011796 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308011797 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 224308011798 active site 224308011799 metal binding site [ion binding]; metal-binding site 224308011800 Protein of unknown function (DUF2711); Region: DUF2711; pfam10924 224308011801 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 224308011802 PTS system, lactose/cellobiose family IIC component; Region: lacE; TIGR00410 224308011803 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 224308011804 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 224308011805 active site 224308011806 catalytic residues [active] 224308011807 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 224308011808 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 224308011809 active site turn [active] 224308011810 phosphorylation site [posttranslational modification] 224308011811 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 224308011812 transcriptional antiterminator BglG; Provisional; Region: PRK09772 224308011813 CAT RNA binding domain; Region: CAT_RBD; pfam03123 224308011814 PRD domain; Region: PRD; pfam00874 224308011815 PRD domain; Region: PRD; pfam00874 224308011816 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 224308011817 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 224308011818 Ligand binding site; other site 224308011819 metal-binding site 224308011820 Predicted integral membrane protein [Function unknown]; Region: COG5522 224308011821 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308011822 MarR family; Region: MarR; pfam01047 224308011823 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 224308011824 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 224308011825 active site 224308011826 HIGH motif; other site 224308011827 dimer interface [polypeptide binding]; other site 224308011828 KMSKS motif; other site 224308011829 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 224308011830 RNA binding surface [nucleotide binding]; other site 224308011831 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 224308011832 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 224308011833 PA/protease domain interface [polypeptide binding]; other site 224308011834 putative integrin binding motif; other site 224308011835 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 224308011836 Peptidase family M28; Region: Peptidase_M28; pfam04389 224308011837 metal binding site [ion binding]; metal-binding site 224308011838 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 224308011839 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 224308011840 synthetase active site [active] 224308011841 NTP binding site [chemical binding]; other site 224308011842 metal binding site [ion binding]; metal-binding site 224308011843 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 224308011844 UbiA prenyltransferase family; Region: UbiA; pfam01040 224308011845 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 224308011846 D-alanine--poly(phosphoribitol) ligase, subunit 1; Region: D-ala-DACP-lig; TIGR01734 224308011847 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 224308011848 acyl-activating enzyme (AAE) consensus motif; other site 224308011849 AMP binding site [chemical binding]; other site 224308011850 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 224308011851 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 224308011852 Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltD; COG3966 224308011853 DltD N-terminal region; Region: DltD_N; pfam04915 224308011854 DltD central region; Region: DltD_M; pfam04918 224308011855 DltD C-terminal region; Region: DltD_C; pfam04914 224308011856 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 224308011857 classical (c) SDR, subgroup 2; Region: SDR_c2; cd05370 224308011858 putative NAD(P) binding site [chemical binding]; other site 224308011859 active site 224308011860 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 224308011861 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 224308011862 homodimer interface [polypeptide binding]; other site 224308011863 substrate-cofactor binding pocket; other site 224308011864 catalytic residue [active] 224308011865 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 224308011866 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 224308011867 NAD binding site [chemical binding]; other site 224308011868 sugar binding site [chemical binding]; other site 224308011869 divalent metal binding site [ion binding]; other site 224308011870 tetramer (dimer of dimers) interface [polypeptide binding]; other site 224308011871 dimer interface [polypeptide binding]; other site 224308011872 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 224308011873 methionine cluster; other site 224308011874 active site 224308011875 phosphorylation site [posttranslational modification] 224308011876 metal binding site [ion binding]; metal-binding site 224308011877 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 224308011878 PTS system, lactose/cellobiose family IIC component; Region: lacE; TIGR00410 224308011879 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 224308011880 active site 224308011881 P-loop; other site 224308011882 phosphorylation site [posttranslational modification] 224308011883 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 224308011884 HTH domain; Region: HTH_11; pfam08279 224308011885 Mga helix-turn-helix domain; Region: Mga; pfam05043 224308011886 PRD domain; Region: PRD; pfam00874 224308011887 PRD domain; Region: PRD; pfam00874 224308011888 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 224308011889 active site 224308011890 P-loop; other site 224308011891 phosphorylation site [posttranslational modification] 224308011892 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 224308011893 active site 224308011894 phosphorylation site [posttranslational modification] 224308011895 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 224308011896 active site 224308011897 DNA binding site [nucleotide binding] 224308011898 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 224308011899 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 224308011900 tetramer interface [polypeptide binding]; other site 224308011901 heme binding pocket [chemical binding]; other site 224308011902 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 224308011903 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308011904 putative substrate translocation pore; other site 224308011905 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 224308011906 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 224308011907 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 224308011908 Walker A/P-loop; other site 224308011909 ATP binding site [chemical binding]; other site 224308011910 Q-loop/lid; other site 224308011911 ABC transporter signature motif; other site 224308011912 Walker B; other site 224308011913 D-loop; other site 224308011914 H-loop/switch region; other site 224308011915 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 224308011916 Exoribonuclease II [Transcription]; Region: Rnb; COG4776 224308011917 RNA polymerase sigma factor SigY; Reviewed; Region: PRK09638 224308011918 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224308011919 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 224308011920 DNA binding residues [nucleotide binding] 224308011921 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 224308011922 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 224308011923 Na binding site [ion binding]; other site 224308011924 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 224308011925 putative substrate binding site [chemical binding]; other site 224308011926 putative ATP binding site [chemical binding]; other site 224308011927 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 224308011928 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224308011929 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 224308011930 Walker A/P-loop; other site 224308011931 ATP binding site [chemical binding]; other site 224308011932 Q-loop/lid; other site 224308011933 ABC transporter signature motif; other site 224308011934 Walker B; other site 224308011935 D-loop; other site 224308011936 H-loop/switch region; other site 224308011937 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 224308011938 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224308011939 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224308011940 ATP binding site [chemical binding]; other site 224308011941 Q-loop/lid; other site 224308011942 ABC transporter signature motif; other site 224308011943 Walker B; other site 224308011944 D-loop; other site 224308011945 H-loop/switch region; other site 224308011946 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 224308011947 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 224308011948 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 224308011949 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 224308011950 Na+/citrate symporter [Energy production and conversion]; Region: CitS; COG3493 224308011951 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 224308011952 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 224308011953 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 224308011954 putative active site [active] 224308011955 putative metal binding site [ion binding]; other site 224308011956 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 224308011957 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 224308011958 Walker A/P-loop; other site 224308011959 ATP binding site [chemical binding]; other site 224308011960 Q-loop/lid; other site 224308011961 ABC transporter signature motif; other site 224308011962 Walker B; other site 224308011963 D-loop; other site 224308011964 H-loop/switch region; other site 224308011965 TOBE domain; Region: TOBE; pfam03459 224308011966 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 224308011967 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 224308011968 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 224308011969 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 224308011970 NAD(P) binding site [chemical binding]; other site 224308011971 catalytic residues [active] 224308011972 Uncharacterized conserved protein [Function unknown]; Region: COG1284 224308011973 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224308011974 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224308011975 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 224308011976 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 224308011977 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 224308011978 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 224308011979 UDP-glucose 4-epimerase; Region: PLN02240 224308011980 NAD binding site [chemical binding]; other site 224308011981 homodimer interface [polypeptide binding]; other site 224308011982 active site 224308011983 substrate binding site [chemical binding]; other site 224308011984 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 224308011985 substrate binding site [chemical binding]; other site 224308011986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308011987 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308011988 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 224308011989 dimerization interface [polypeptide binding]; other site 224308011990 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 224308011991 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 224308011992 Histidine kinase; Region: HisKA_3; pfam07730 224308011993 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 224308011994 ATP binding site [chemical binding]; other site 224308011995 Mg2+ binding site [ion binding]; other site 224308011996 G-X-G motif; other site 224308011997 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 224308011998 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 224308011999 active site 224308012000 phosphorylation site [posttranslational modification] 224308012001 intermolecular recognition site; other site 224308012002 dimerization interface [polypeptide binding]; other site 224308012003 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 224308012004 DNA binding residues [nucleotide binding] 224308012005 dimerization interface [polypeptide binding]; other site 224308012006 peptidase T; Region: peptidase-T; TIGR01882 224308012007 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 224308012008 metal binding site [ion binding]; metal-binding site 224308012009 dimer interface [polypeptide binding]; other site 224308012010 Uncharacterized conserved protein [Function unknown]; Region: COG4894 224308012011 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 224308012012 substrate binding site [chemical binding]; other site 224308012013 THF binding site; other site 224308012014 zinc-binding site [ion binding]; other site 224308012015 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 224308012016 substrate binding site [chemical binding]; other site 224308012017 THF binding site; other site 224308012018 zinc-binding site [ion binding]; other site 224308012019 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 224308012020 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 224308012021 NAD binding site [chemical binding]; other site 224308012022 homotetramer interface [polypeptide binding]; other site 224308012023 homodimer interface [polypeptide binding]; other site 224308012024 substrate binding site [chemical binding]; other site 224308012025 active site 224308012026 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 224308012027 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 224308012028 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 224308012029 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 224308012030 Methyltransferase domain; Region: Methyltransf_11; pfam08241 224308012031 S-adenosylmethionine binding site [chemical binding]; other site 224308012032 nucleoside transporter; Region: nupC; TIGR00804 224308012033 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 224308012034 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 224308012035 Evidence 7: Gene remnant 224308012036 Evidence 7: Gene remnant 224308012037 hydroperoxidase II; Provisional; Region: katE; PRK11249 224308012038 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 224308012039 tetramer interface [polypeptide binding]; other site 224308012040 heme binding pocket [chemical binding]; other site 224308012041 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 224308012042 domain interactions; other site 224308012043 citrate transporter, CitMHS family; Region: citMHS; TIGR00784 224308012044 Citrate transporter; Region: CitMHS; pfam03600 224308012045 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 224308012046 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 224308012047 active site 224308012048 active site 224308012049 catalytic residues [active] 224308012050 transcriptional antiterminator BglG; Provisional; Region: PRK09772 224308012051 CAT RNA binding domain; Region: CAT_RBD; pfam03123 224308012052 PRD domain; Region: PRD; pfam00874 224308012053 PRD domain; Region: PRD; pfam00874 224308012054 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 224308012055 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 224308012056 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 224308012057 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 224308012058 ATP binding site [chemical binding]; other site 224308012059 Mg++ binding site [ion binding]; other site 224308012060 motif III; other site 224308012061 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 224308012062 nucleotide binding region [chemical binding]; other site 224308012063 ATP-binding site [chemical binding]; other site 224308012064 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 224308012065 RNA binding site [nucleotide binding]; other site 224308012066 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 224308012067 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 224308012068 active site 224308012069 catalytic triad [active] 224308012070 Evidence 5: No homology to any previously reported sequences 224308012071 YxiJ-like protein; Region: YxiJ; pfam14176 224308012072 Protein of unknown function (DUF2716); Region: DUF2716; pfam10898 224308012073 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 224308012074 RHS Repeat; Region: RHS_repeat; pfam05593 224308012075 RHS Repeat; Region: RHS_repeat; pfam05593 224308012076 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 224308012077 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 224308012078 RHS Repeat; Region: RHS_repeat; pfam05593 224308012079 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 224308012080 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 224308012081 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 224308012082 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224308012083 EamA-like transporter family; Region: EamA; pfam00892 224308012084 EamA-like transporter family; Region: EamA; pfam00892 224308012085 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 224308012086 Ligand Binding Site [chemical binding]; other site 224308012087 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 224308012088 beta-galactosidase; Region: BGL; TIGR03356 224308012089 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 224308012090 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 224308012091 active site turn [active] 224308012092 phosphorylation site [posttranslational modification] 224308012093 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 224308012094 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 224308012095 HPr interaction site; other site 224308012096 glycerol kinase (GK) interaction site [polypeptide binding]; other site 224308012097 active site 224308012098 phosphorylation site [posttranslational modification] 224308012099 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 224308012100 Uncharacterized conserved protein [Function unknown]; Region: COG5444 224308012101 A pre-toxin domain with the TG motif; Region: PT-TG; pfam14449 224308012102 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 224308012103 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 224308012104 substrate binding site [chemical binding]; other site 224308012105 active site 224308012106 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 224308012107 hexamer interface [polypeptide binding]; other site 224308012108 RNA binding site [nucleotide binding]; other site 224308012109 Histidine-zinc binding site [chemical binding]; other site 224308012110 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 224308012111 active sites [active] 224308012112 tetramer interface [polypeptide binding]; other site 224308012113 urocanate hydratase; Provisional; Region: PRK05414 224308012114 imidazolonepropionase; Validated; Region: PRK09356 224308012115 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 224308012116 active site 224308012117 Agmatinase-like family; Region: Agmatinase-like; cd09990 224308012118 agmatinase; Region: agmatinase; TIGR01230 224308012119 active site 224308012120 oligomer interface [polypeptide binding]; other site 224308012121 Mn binding site [ion binding]; other site 224308012122 S-methylmethionine transporter; Provisional; Region: PRK11387 224308012123 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 224308012124 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 224308012125 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 224308012126 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 224308012127 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 224308012128 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 224308012129 Nucleoside recognition; Region: Gate; pfam07670 224308012130 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 224308012131 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 224308012132 intersubunit interface [polypeptide binding]; other site 224308012133 active site 224308012134 catalytic residue [active] 224308012135 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 224308012136 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 224308012137 DNA binding residues [nucleotide binding] 224308012138 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 224308012139 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 224308012140 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 224308012141 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 224308012142 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 224308012143 MmgE/PrpD family; Region: MmgE_PrpD; pfam03972 224308012144 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 224308012145 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 224308012146 metal binding site [ion binding]; metal-binding site 224308012147 dimer interface [polypeptide binding]; other site 224308012148 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 224308012149 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 224308012150 Walker A/P-loop; other site 224308012151 ATP binding site [chemical binding]; other site 224308012152 Q-loop/lid; other site 224308012153 ABC transporter signature motif; other site 224308012154 Walker B; other site 224308012155 D-loop; other site 224308012156 H-loop/switch region; other site 224308012157 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 224308012158 dimer interface [polypeptide binding]; other site 224308012159 conserved gate region; other site 224308012160 putative PBP binding loops; other site 224308012161 ABC-ATPase subunit interface; other site 224308012162 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 224308012163 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 224308012164 substrate binding pocket [chemical binding]; other site 224308012165 membrane-bound complex binding site; other site 224308012166 hinge residues; other site 224308012167 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308012168 Coenzyme A binding pocket [chemical binding]; other site 224308012169 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 224308012170 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 224308012171 active site 224308012172 non-prolyl cis peptide bond; other site 224308012173 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 224308012174 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 224308012175 active site 224308012176 sugar phosphate phosphatase; Provisional; Region: PRK10513 224308012177 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 224308012178 active site 224308012179 motif I; other site 224308012180 motif II; other site 224308012181 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 224308012182 Protein of unknown function (DUF3255); Region: DUF3255; pfam11631 224308012183 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 224308012184 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 224308012185 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 224308012186 putative ligand binding residues [chemical binding]; other site 224308012187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5294 224308012188 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 224308012189 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 224308012190 Walker A/P-loop; other site 224308012191 ATP binding site [chemical binding]; other site 224308012192 Q-loop/lid; other site 224308012193 ABC transporter signature motif; other site 224308012194 Walker B; other site 224308012195 D-loop; other site 224308012196 H-loop/switch region; other site 224308012197 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224308012198 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 224308012199 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 224308012200 ATP binding site [chemical binding]; other site 224308012201 Mg2+ binding site [ion binding]; other site 224308012202 G-X-G motif; other site 224308012203 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224308012204 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 224308012205 active site 224308012206 phosphorylation site [posttranslational modification] 224308012207 intermolecular recognition site; other site 224308012208 dimerization interface [polypeptide binding]; other site 224308012209 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 224308012210 DNA binding site [nucleotide binding] 224308012211 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 224308012212 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 224308012213 intersubunit interface [polypeptide binding]; other site 224308012214 active site 224308012215 zinc binding site [ion binding]; other site 224308012216 Na+ binding site [ion binding]; other site 224308012217 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 224308012218 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; cl12060 224308012219 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 224308012220 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; cl12060 224308012221 DNA interaction; other site 224308012222 Metal-binding active site; metal-binding site 224308012223 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224308012224 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224308012225 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224308012226 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 224308012227 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308012228 putative substrate translocation pore; other site 224308012229 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 224308012230 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 224308012231 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 224308012232 PYR/PP interface [polypeptide binding]; other site 224308012233 dimer interface [polypeptide binding]; other site 224308012234 TPP binding site [chemical binding]; other site 224308012235 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 224308012236 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 224308012237 TPP-binding site; other site 224308012238 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 224308012239 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 224308012240 substrate binding site [chemical binding]; other site 224308012241 ATP binding site [chemical binding]; other site 224308012242 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 224308012243 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 224308012244 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 224308012245 tetrameric interface [polypeptide binding]; other site 224308012246 NAD binding site [chemical binding]; other site 224308012247 catalytic residues [active] 224308012248 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 224308012249 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 224308012250 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 224308012251 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 224308012252 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 224308012253 active site 224308012254 catalytic tetrad [active] 224308012255 Protein of unknown function (DUF2653); Region: DUF2653; pfam10850 224308012256 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 224308012257 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 224308012258 putative substrate translocation pore; other site 224308012259 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 224308012260 heat shock protein 90; Provisional; Region: PRK05218 224308012261 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 224308012262 ATP binding site [chemical binding]; other site 224308012263 Mg2+ binding site [ion binding]; other site 224308012264 G-X-G motif; other site 224308012265 short chain dehydrogenase; Validated; Region: PRK08589 224308012266 classical (c) SDRs; Region: SDR_c; cd05233 224308012267 NAD(P) binding site [chemical binding]; other site 224308012268 active site 224308012269 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308012270 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308012271 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308012272 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 224308012273 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 224308012274 NAD(P) binding site [chemical binding]; other site 224308012275 catalytic residues [active] 224308012276 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308012277 Coenzyme A binding pocket [chemical binding]; other site 224308012278 Uncharacterized conserved protein [Function unknown]; Region: COG2850 224308012279 Cupin-like domain; Region: Cupin_8; pfam13621 224308012280 Methyltransferase domain; Region: Methyltransf_23; pfam13489 224308012281 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 224308012282 S-adenosylmethionine binding site [chemical binding]; other site 224308012283 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 224308012284 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 224308012285 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 224308012286 active site 224308012287 dimer interface [polypeptide binding]; other site 224308012288 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 224308012289 Ligand Binding Site [chemical binding]; other site 224308012290 Molecular Tunnel; other site 224308012291 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 224308012292 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308012293 putative substrate translocation pore; other site 224308012294 FOG: WD40-like repeat [Function unknown]; Region: COG1520 224308012295 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 224308012296 active site 224308012297 Trp docking motif [polypeptide binding]; other site 224308012298 RDD family; Region: RDD; pfam06271 224308012299 Predicted membrane protein [Function unknown]; Region: COG2311 224308012300 Protein of unknown function (DUF418); Region: DUF418; pfam04235 224308012301 Cupin domain; Region: Cupin_2; pfam07883 224308012302 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 224308012303 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224308012304 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224308012305 short chain dehydrogenase; Provisional; Region: PRK07109 224308012306 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 224308012307 putative NAD(P) binding site [chemical binding]; other site 224308012308 active site 224308012309 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308012310 MarR family; Region: MarR; pfam01047 224308012311 LrgA family; Region: LrgA; cl00608 224308012312 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 224308012313 Exopolysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: COG5039 224308012314 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 224308012315 Glycerate kinase family; Region: Gly_kinase; pfam02595 224308012316 Transcriptional regulators [Transcription]; Region: GntR; COG1802 224308012317 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308012318 DNA-binding site [nucleotide binding]; DNA binding site 224308012319 FCD domain; Region: FCD; pfam07729 224308012320 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 224308012321 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 224308012322 N- and C-terminal domain interface [polypeptide binding]; other site 224308012323 active site 224308012324 catalytic site [active] 224308012325 metal binding site [ion binding]; metal-binding site 224308012326 carbohydrate binding site [chemical binding]; other site 224308012327 ATP binding site [chemical binding]; other site 224308012328 fructuronate transporter; Provisional; Region: PRK10034; cl15264 224308012329 gluconate transporter; Region: gntP; TIGR00791 224308012330 6-phosphogluconate dehydrogenase (decarboxylating); Region: gnd; TIGR00873 224308012331 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 224308012332 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 224308012333 peroxiredoxin; Region: AhpC; TIGR03137 224308012334 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 224308012335 dimer interface [polypeptide binding]; other site 224308012336 decamer (pentamer of dimers) interface [polypeptide binding]; other site 224308012337 catalytic triad [active] 224308012338 peroxidatic and resolving cysteines [active] 224308012339 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 224308012340 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 224308012341 catalytic residue [active] 224308012342 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 224308012343 catalytic residues [active] 224308012344 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 224308012345 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224308012346 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 224308012347 beta-galactosidase; Region: BGL; TIGR03356 224308012348 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 224308012349 HPr interaction site; other site 224308012350 active site 224308012351 phosphorylation site [posttranslational modification] 224308012352 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 224308012353 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224308012354 DNA-binding site [nucleotide binding]; DNA binding site 224308012355 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 224308012356 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 224308012357 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 224308012358 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 224308012359 Walker A/P-loop; other site 224308012360 ATP binding site [chemical binding]; other site 224308012361 Q-loop/lid; other site 224308012362 ABC transporter signature motif; other site 224308012363 Walker B; other site 224308012364 D-loop; other site 224308012365 H-loop/switch region; other site 224308012366 peptide modification radical SAM enzyme, YydG family; Region: rSAM_yydG; TIGR04078 224308012367 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 224308012368 FeS/SAM binding site; other site 224308012369 exported signaling peptide, YydF/SAG_2028 family; Region: expor_sig_YdyF; TIGR04077 224308012370 Uncharacterized protein conserved in bacteria [Carbohydrate transport and metabolism]; Region: Fbp; COG3855 224308012371 Predicted ATPase [General function prediction only]; Region: COG5293 224308012372 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 224308012373 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 224308012374 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 224308012375 putative active site [active] 224308012376 putative metal binding site [ion binding]; other site 224308012377 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 224308012378 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 224308012379 CxxH/CxxC protein, BA_5709 family; Region: CxxH_BA5709; TIGR04129 224308012380 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 224308012381 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 224308012382 NAD binding site [chemical binding]; other site 224308012383 catalytic Zn binding site [ion binding]; other site 224308012384 structural Zn binding site [ion binding]; other site 224308012385 Uncharacterized distant relative of cell wall-associated hydrolases [Function unknown]; Region: COG3863 224308012386 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 224308012387 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308012388 Coenzyme A binding pocket [chemical binding]; other site 224308012389 Tetratricopeptide repeat; Region: TPR_12; pfam13424 224308012390 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 224308012391 binding surface 224308012392 TPR motif; other site 224308012393 Tetratricopeptide repeat; Region: TPR_12; pfam13424 224308012394 Arginase family; Region: Arginase; cd09989 224308012395 agmatinase; Region: agmatinase; TIGR01230 224308012396 active site 224308012397 Mn binding site [ion binding]; other site 224308012398 oligomer interface [polypeptide binding]; other site 224308012399 S-methylmethionine transporter; Provisional; Region: PRK11387 224308012400 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 224308012401 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 224308012402 inhibitor-cofactor binding pocket; inhibition site 224308012403 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224308012404 catalytic residue [active] 224308012405 PAS domain; Region: PAS; smart00091 224308012406 PAS domain; Region: PAS_9; pfam13426 224308012407 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 224308012408 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 224308012409 Walker A motif; other site 224308012410 ATP binding site [chemical binding]; other site 224308012411 Walker B motif; other site 224308012412 arginine finger; other site 224308012413 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 224308012414 Evidence 3: Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId: 17198402; Product type pr : regulator 224308012415 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 224308012416 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 224308012417 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 224308012418 protein binding site [polypeptide binding]; other site 224308012419 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 224308012420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4853 224308012421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 224308012422 YycH protein; Region: YycH; pfam07435 224308012423 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 224308012424 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 224308012425 dimerization interface [polypeptide binding]; other site 224308012426 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 224308012427 putative active site [active] 224308012428 heme pocket [chemical binding]; other site 224308012429 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 224308012430 dimer interface [polypeptide binding]; other site 224308012431 phosphorylation site [posttranslational modification] 224308012432 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 224308012433 ATP binding site [chemical binding]; other site 224308012434 Mg2+ binding site [ion binding]; other site 224308012435 G-X-G motif; other site 224308012436 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224308012437 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 224308012438 active site 224308012439 phosphorylation site [posttranslational modification] 224308012440 intermolecular recognition site; other site 224308012441 dimerization interface [polypeptide binding]; other site 224308012442 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 224308012443 DNA binding site [nucleotide binding] 224308012444 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 224308012445 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 224308012446 GDP-binding site [chemical binding]; other site 224308012447 ACT binding site; other site 224308012448 IMP binding site; other site 224308012449 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308012450 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 224308012451 active site 224308012452 replicative DNA helicase; Provisional; Region: PRK05748 224308012453 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 224308012454 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 224308012455 Walker A motif; other site 224308012456 ATP binding site [chemical binding]; other site 224308012457 Walker B motif; other site 224308012458 DNA binding loops [nucleotide binding] 224308012459 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 224308012460 YycC-like protein; Region: YycC; pfam14174 224308012461 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 224308012462 cyanate transporter; Region: CynX; TIGR00896 224308012463 putative substrate translocation pore; other site 224308012464 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 224308012465 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 224308012466 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 224308012467 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 224308012468 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 224308012469 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 224308012470 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 224308012471 diguanylate cyclase; Region: GGDEF; smart00267 224308012472 DHH family; Region: DHH; pfam01368 224308012473 DHHA1 domain; Region: DHHA1; pfam02272 224308012474 Predicted membrane protein [Function unknown]; Region: COG4241 224308012475 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 224308012476 Predicted transcriptional regulators [Transcription]; Region: COG1733 224308012477 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 224308012478 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 224308012479 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 224308012480 DHHA2 domain; Region: DHHA2; pfam02833 224308012481 ANTAR domain; Region: ANTAR; cl04297 224308012482 D-galactonate transporter; Region: 2A0114; TIGR00893 224308012483 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 224308012484 putative substrate translocation pore; other site 224308012485 Evidence 5: No homology to any previously reported sequences 224308012486 Evidence 5: No homology to any previously reported sequences 224308012487 Evidence 4: Homologs of previously reported genes of unknown function 224308012488 Evidence 4: Homologs of previously reported genes of unknown function 224308012489 Protein of unknown function (DUF2712); Region: DUF2712; pfam10916 224308012490 Protein of unknown function (DUF2705); Region: DUF2705; pfam10920 224308012491 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 224308012492 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 224308012493 Walker A/P-loop; other site 224308012494 ATP binding site [chemical binding]; other site 224308012495 Q-loop/lid; other site 224308012496 ABC transporter signature motif; other site 224308012497 Walker B; other site 224308012498 D-loop; other site 224308012499 H-loop/switch region; other site 224308012500 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 224308012501 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 224308012502 SnoaL-like domain; Region: SnoaL_3; pfam13474 224308012503 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 224308012504 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 224308012505 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 224308012506 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 224308012507 putative substrate translocation pore; other site 224308012508 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224308012509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224308012510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224308012511 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 224308012512 putative dimerization interface [polypeptide binding]; other site 224308012513 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308012514 Coenzyme A binding pocket [chemical binding]; other site 224308012515 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 224308012516 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224308012517 MarR family; Region: MarR; pfam01047 224308012518 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308012519 Coenzyme A binding pocket [chemical binding]; other site 224308012520 Predicted membrane protein [Function unknown]; Region: COG2364 224308012521 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 224308012522 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224308012523 Coenzyme A binding pocket [chemical binding]; other site 224308012524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 224308012525 RibD C-terminal domain; Region: RibD_C; cl17279 224308012526 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 224308012527 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 224308012528 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 224308012529 putative substrate translocation pore; other site 224308012530 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 224308012531 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 224308012532 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 224308012533 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 224308012534 DNA binding residues [nucleotide binding] 224308012535 putative dimer interface [polypeptide binding]; other site 224308012536 EamA-like transporter family; Region: EamA; pfam00892 224308012537 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 224308012538 EamA-like transporter family; Region: EamA; pfam00892 224308012539 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 224308012540 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 224308012541 catalytic residues [active] 224308012542 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 224308012543 CAAX protease self-immunity; Region: Abi; pfam02517 224308012544 benzoate transport; Region: 2A0115; TIGR00895 224308012545 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 224308012546 putative substrate translocation pore; other site 224308012547 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 224308012548 maltose O-acetyltransferase; Provisional; Region: PRK10092 224308012549 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 224308012550 active site 224308012551 substrate binding site [chemical binding]; other site 224308012552 trimer interface [polypeptide binding]; other site 224308012553 CoA binding site [chemical binding]; other site 224308012554 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224308012555 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 224308012556 putative metal binding site [ion binding]; other site 224308012557 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224308012558 DNA binding site [nucleotide binding] 224308012559 domain linker motif; other site 224308012560 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 224308012561 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 224308012562 putative dimerization interface [polypeptide binding]; other site 224308012563 putative ligand binding site [chemical binding]; other site 224308012564 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 224308012565 active site 224308012566 putative catalytic site [active] 224308012567 DNA binding site [nucleotide binding] 224308012568 putative phosphate binding site [ion binding]; other site 224308012569 metal binding site A [ion binding]; metal-binding site 224308012570 AP binding site [nucleotide binding]; other site 224308012571 metal binding site B [ion binding]; metal-binding site 224308012572 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 224308012573 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 224308012574 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 224308012575 dimer interface [polypeptide binding]; other site 224308012576 ssDNA binding site [nucleotide binding]; other site 224308012577 tetramer (dimer of dimers) interface [polypeptide binding]; other site 224308012578 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 224308012579 GTP-binding protein YchF; Reviewed; Region: PRK09601 224308012580 YchF GTPase; Region: YchF; cd01900 224308012581 G1 box; other site 224308012582 GTP/Mg2+ binding site [chemical binding]; other site 224308012583 Switch I region; other site 224308012584 G2 box; other site 224308012585 Switch II region; other site 224308012586 G3 box; other site 224308012587 G4 box; other site 224308012588 G5 box; other site 224308012589 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 224308012590 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 224308012591 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 224308012592 putative [4Fe-4S] binding site [ion binding]; other site 224308012593 putative molybdopterin cofactor binding site [chemical binding]; other site 224308012594 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 224308012595 molybdopterin cofactor binding site; other site 224308012596 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 224308012597 Uncharacterized membrane protein [Function unknown]; Region: COG3949 224308012598 putative sporulation protein YyaC; Region: spore_YyaC; TIGR02841 224308012599 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 224308012600 ParB-like nuclease domain; Region: ParB; smart00470 224308012601 KorB domain; Region: KorB; pfam08535 224308012602 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 224308012603 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 224308012604 P-loop; other site 224308012605 Magnesium ion binding site [ion binding]; other site 224308012606 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 224308012607 Magnesium ion binding site [ion binding]; other site 224308012608 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 224308012609 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 224308012610 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 224308012611 ParB-like nuclease domain; Region: ParB; smart00470 224308012612 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 224308012613 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 224308012614 S-adenosylmethionine binding site [chemical binding]; other site 224308012615 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 224308012616 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 224308012617 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 224308012618 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 224308012619 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 224308012620 trmE is a tRNA modification GTPase; Region: trmE; cd04164 224308012621 G1 box; other site 224308012622 GTP/Mg2+ binding site [chemical binding]; other site 224308012623 Switch I region; other site 224308012624 G2 box; other site 224308012625 Switch II region; other site 224308012626 G3 box; other site 224308012627 G4 box; other site 224308012628 G5 box; other site 224308012629 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 224308012630 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 224308012631 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 224308012632 G-X-X-G motif; other site 224308012633 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 224308012634 RxxxH motif; other site 224308012635 OxaA-like protein precursor; Validated; Region: PRK02944 224308012636 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 224308012637 ribonuclease P; Reviewed; Region: rnpA; PRK00499 224308012638 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399