-- dump date 20140619_101834 -- class Genbank::misc_feature -- table misc_feature_note -- id note 544556000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 544556000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 544556000003 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 544556000004 Walker A motif; other site 544556000005 ATP binding site [chemical binding]; other site 544556000006 Walker B motif; other site 544556000007 arginine finger; other site 544556000008 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 544556000009 DnaA box-binding interface [nucleotide binding]; other site 544556000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 544556000011 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 544556000012 putative DNA binding surface [nucleotide binding]; other site 544556000013 dimer interface [polypeptide binding]; other site 544556000014 beta-clamp/clamp loader binding surface; other site 544556000015 beta-clamp/translesion DNA polymerase binding surface; other site 544556000016 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 544556000017 recombination protein F; Reviewed; Region: recF; PRK00064 544556000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 544556000019 Walker A/P-loop; other site 544556000020 ATP binding site [chemical binding]; other site 544556000021 Q-loop/lid; other site 544556000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 544556000023 ABC transporter signature motif; other site 544556000024 Walker B; other site 544556000025 D-loop; other site 544556000026 H-loop/switch region; other site 544556000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 544556000028 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 544556000029 Mg2+ binding site [ion binding]; other site 544556000030 G-X-G motif; other site 544556000031 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 544556000032 anchoring element; other site 544556000033 dimer interface [polypeptide binding]; other site 544556000034 ATP binding site [chemical binding]; other site 544556000035 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 544556000036 active site 544556000037 putative metal-binding site [ion binding]; other site 544556000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 544556000039 DNA gyrase subunit A; Validated; Region: PRK05560 544556000040 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 544556000041 CAP-like domain; other site 544556000042 active site 544556000043 primary dimer interface [polypeptide binding]; other site 544556000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 544556000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 544556000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 544556000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 544556000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 544556000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 544556000050 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 544556000051 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 544556000052 Zn2+ binding site [ion binding]; other site 544556000053 Mg2+ binding site [ion binding]; other site 544556000054 YaaC-like Protein; Region: YaaC; pfam14175 544556000055 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 544556000056 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 544556000057 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 544556000058 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 544556000059 active site 544556000060 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 544556000061 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 544556000062 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 544556000063 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 544556000064 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 544556000065 active site 544556000066 multimer interface [polypeptide binding]; other site 544556000067 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 544556000068 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 544556000069 predicted active site [active] 544556000070 catalytic triad [active] 544556000071 seryl-tRNA synthetase; Provisional; Region: PRK05431 544556000072 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 544556000073 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 544556000074 dimer interface [polypeptide binding]; other site 544556000075 active site 544556000076 motif 1; other site 544556000077 motif 2; other site 544556000078 motif 3; other site 544556000079 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 544556000080 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556000081 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556000082 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 544556000083 active site 544556000084 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 544556000085 nucleoside/Zn binding site; other site 544556000086 dimer interface [polypeptide binding]; other site 544556000087 catalytic motif [active] 544556000088 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 544556000089 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 544556000090 Walker A motif; other site 544556000091 ATP binding site [chemical binding]; other site 544556000092 Walker B motif; other site 544556000093 arginine finger; other site 544556000094 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 544556000095 hypothetical protein; Validated; Region: PRK00153 544556000096 recombination protein RecR; Reviewed; Region: recR; PRK00076 544556000097 RecR protein; Region: RecR; pfam02132 544556000098 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 544556000099 putative active site [active] 544556000100 putative metal-binding site [ion binding]; other site 544556000101 tetramer interface [polypeptide binding]; other site 544556000102 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 544556000103 pro-sigmaK processing inhibitor BofA; Region: spore_BofA; TIGR02862 544556000104 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 544556000105 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 544556000106 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 544556000107 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 544556000108 catalytic residue [active] 544556000109 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 544556000110 thymidylate kinase; Validated; Region: tmk; PRK00698 544556000111 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 544556000112 TMP-binding site; other site 544556000113 ATP-binding site [chemical binding]; other site 544556000114 DNA polymerase III subunit delta'; Validated; Region: PRK08058 544556000115 DNA polymerase III subunit delta'; Validated; Region: PRK08485 544556000116 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 544556000117 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 544556000118 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 544556000119 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 544556000120 S-adenosylmethionine binding site [chemical binding]; other site 544556000121 Predicted methyltransferases [General function prediction only]; Region: COG0313 544556000122 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 544556000123 putative SAM binding site [chemical binding]; other site 544556000124 putative homodimer interface [polypeptide binding]; other site 544556000125 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 544556000126 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 544556000127 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 544556000128 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 544556000129 active site 544556000130 HIGH motif; other site 544556000131 KMSKS motif; other site 544556000132 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 544556000133 tRNA binding surface [nucleotide binding]; other site 544556000134 anticodon binding site; other site 544556000135 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 544556000136 dimer interface [polypeptide binding]; other site 544556000137 putative tRNA-binding site [nucleotide binding]; other site 544556000138 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 544556000139 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 544556000140 active site 544556000141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 544556000142 Domain of unknown function (DUF348); Region: DUF348; pfam03990 544556000143 Domain of unknown function (DUF348); Region: DUF348; pfam03990 544556000144 Domain of unknown function (DUF348); Region: DUF348; pfam03990 544556000145 G5 domain; Region: G5; pfam07501 544556000146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 544556000147 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 544556000148 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 544556000149 putative active site [active] 544556000150 putative metal binding site [ion binding]; other site 544556000151 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 544556000152 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 544556000153 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 544556000154 S-adenosylmethionine binding site [chemical binding]; other site 544556000155 sporulation peptidase YabG; Region: spore_yabG; TIGR02855 544556000156 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 544556000157 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 544556000158 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 544556000159 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 544556000160 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 544556000161 pur operon repressor; Provisional; Region: PRK09213 544556000162 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 544556000163 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 544556000164 active site 544556000165 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 544556000166 homotrimer interaction site [polypeptide binding]; other site 544556000167 putative active site [active] 544556000168 regulatory protein SpoVG; Reviewed; Region: PRK13259 544556000169 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 544556000170 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 544556000171 Substrate binding site; other site 544556000172 Mg++ binding site; other site 544556000173 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 544556000174 active site 544556000175 substrate binding site [chemical binding]; other site 544556000176 CoA binding site [chemical binding]; other site 544556000177 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 544556000178 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 544556000179 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 544556000180 active site 544556000181 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 544556000182 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 544556000183 5S rRNA interface [nucleotide binding]; other site 544556000184 CTC domain interface [polypeptide binding]; other site 544556000185 L16 interface [polypeptide binding]; other site 544556000186 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 544556000187 putative active site [active] 544556000188 catalytic residue [active] 544556000189 Protein of unknown function (DUF2757); Region: DUF2757; pfam10955 544556000190 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 544556000191 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 544556000192 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 544556000193 ATP binding site [chemical binding]; other site 544556000194 putative Mg++ binding site [ion binding]; other site 544556000195 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 544556000196 nucleotide binding region [chemical binding]; other site 544556000197 ATP-binding site [chemical binding]; other site 544556000198 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 544556000199 stage V sporulation protein T; Region: spore_V_T; TIGR02851 544556000200 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 544556000201 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 544556000202 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 544556000203 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 544556000204 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 544556000205 putative SAM binding site [chemical binding]; other site 544556000206 putative homodimer interface [polypeptide binding]; other site 544556000207 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 544556000208 homodimer interface [polypeptide binding]; other site 544556000209 metal binding site [ion binding]; metal-binding site 544556000210 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 544556000211 homodimer interface [polypeptide binding]; other site 544556000212 active site 544556000213 putative chemical substrate binding site [chemical binding]; other site 544556000214 metal binding site [ion binding]; metal-binding site 544556000215 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 544556000216 RNA binding surface [nucleotide binding]; other site 544556000217 sporulation protein YabP; Region: spore_yabP; TIGR02892 544556000218 spore cortex biosynthesis protein YabQ; Region: spore_yabQ; TIGR02893 544556000219 Septum formation initiator; Region: DivIC; pfam04977 544556000220 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 544556000221 hypothetical protein; Provisional; Region: PRK08582 544556000222 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 544556000223 RNA binding site [nucleotide binding]; other site 544556000224 stage II sporulation protein E; Region: spore_II_E; TIGR02865 544556000225 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 544556000226 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 544556000227 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 544556000228 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 544556000229 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 544556000230 metal ion-dependent adhesion site (MIDAS); other site 544556000231 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 544556000232 Catalytic domain of Protein Kinases; Region: PKc; cd00180 544556000233 active site 544556000234 ATP binding site [chemical binding]; other site 544556000235 substrate binding site [chemical binding]; other site 544556000236 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 544556000237 active site 544556000238 ATP binding site [chemical binding]; other site 544556000239 substrate binding site [chemical binding]; other site 544556000240 activation loop (A-loop); other site 544556000241 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 544556000242 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 544556000243 Ligand Binding Site [chemical binding]; other site 544556000244 TilS substrate C-terminal domain; Region: TilS_C; smart00977 544556000245 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 544556000246 active site 544556000247 FtsH Extracellular; Region: FtsH_ext; pfam06480 544556000248 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 544556000249 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 544556000250 Walker A motif; other site 544556000251 ATP binding site [chemical binding]; other site 544556000252 Walker B motif; other site 544556000253 arginine finger; other site 544556000254 Peptidase family M41; Region: Peptidase_M41; pfam01434 544556000255 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 544556000256 nucleotide binding site [chemical binding]; other site 544556000257 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 544556000258 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 544556000259 dimerization interface [polypeptide binding]; other site 544556000260 domain crossover interface; other site 544556000261 redox-dependent activation switch; other site 544556000262 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 544556000263 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 544556000264 dimer interface [polypeptide binding]; other site 544556000265 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556000266 catalytic residue [active] 544556000267 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 544556000268 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 544556000269 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 544556000270 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 544556000271 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 544556000272 glutamine binding [chemical binding]; other site 544556000273 catalytic triad [active] 544556000274 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 544556000275 4-amino-4-deoxychorismate lyase; Provisional; Region: PRK07650 544556000276 homodimer interface [polypeptide binding]; other site 544556000277 substrate-cofactor binding pocket; other site 544556000278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556000279 catalytic residue [active] 544556000280 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 544556000281 dihydropteroate synthase; Region: DHPS; TIGR01496 544556000282 substrate binding pocket [chemical binding]; other site 544556000283 dimer interface [polypeptide binding]; other site 544556000284 inhibitor binding site; inhibition site 544556000285 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 544556000286 homooctamer interface [polypeptide binding]; other site 544556000287 active site 544556000288 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 544556000289 catalytic center binding site [active] 544556000290 ATP binding site [chemical binding]; other site 544556000291 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 544556000292 non-specific DNA binding site [nucleotide binding]; other site 544556000293 salt bridge; other site 544556000294 sequence-specific DNA binding site [nucleotide binding]; other site 544556000295 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556000296 Transposase; Region: DEDD_Tnp_IS110; pfam01548 544556000297 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 544556000298 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556000299 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 544556000300 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 544556000301 FMN binding site [chemical binding]; other site 544556000302 active site 544556000303 catalytic residues [active] 544556000304 substrate binding site [chemical binding]; other site 544556000305 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 544556000306 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 544556000307 dimer interface [polypeptide binding]; other site 544556000308 putative anticodon binding site; other site 544556000309 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 544556000310 motif 1; other site 544556000311 active site 544556000312 motif 2; other site 544556000313 motif 3; other site 544556000314 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 544556000315 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 544556000316 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 544556000317 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 544556000318 ADP binding site [chemical binding]; other site 544556000319 phosphagen binding site; other site 544556000320 substrate specificity loop; other site 544556000321 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 544556000322 Clp amino terminal domain; Region: Clp_N; pfam02861 544556000323 Clp amino terminal domain; Region: Clp_N; pfam02861 544556000324 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 544556000325 Walker A motif; other site 544556000326 ATP binding site [chemical binding]; other site 544556000327 Walker B motif; other site 544556000328 arginine finger; other site 544556000329 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 544556000330 Walker A motif; other site 544556000331 ATP binding site [chemical binding]; other site 544556000332 Walker B motif; other site 544556000333 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 544556000334 DNA repair protein RadA; Provisional; Region: PRK11823 544556000335 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 544556000336 Walker A motif/ATP binding site; other site 544556000337 ATP binding site [chemical binding]; other site 544556000338 Walker B motif; other site 544556000339 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 544556000340 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 544556000341 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 544556000342 putative active site [active] 544556000343 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 544556000344 substrate binding site; other site 544556000345 dimer interface; other site 544556000346 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 544556000347 homotrimer interaction site [polypeptide binding]; other site 544556000348 zinc binding site [ion binding]; other site 544556000349 CDP-binding sites; other site 544556000350 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 544556000351 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 544556000352 HIGH motif; other site 544556000353 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 544556000354 active site 544556000355 KMSKS motif; other site 544556000356 serine O-acetyltransferase; Region: cysE; TIGR01172 544556000357 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 544556000358 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 544556000359 trimer interface [polypeptide binding]; other site 544556000360 active site 544556000361 substrate binding site [chemical binding]; other site 544556000362 CoA binding site [chemical binding]; other site 544556000363 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 544556000364 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 544556000365 active site 544556000366 HIGH motif; other site 544556000367 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 544556000368 KMSKS motif; other site 544556000369 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 544556000370 tRNA binding surface [nucleotide binding]; other site 544556000371 anticodon binding site; other site 544556000372 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 544556000373 active site 544556000374 metal binding site [ion binding]; metal-binding site 544556000375 dimerization interface [polypeptide binding]; other site 544556000376 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 544556000377 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 544556000378 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 544556000379 YacP-like NYN domain; Region: NYN_YacP; cl01491 544556000380 RNA polymerase factor sigma-70; Validated; Region: PRK08295 544556000381 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 544556000382 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 544556000383 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 544556000384 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 544556000385 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 544556000386 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 544556000387 putative homodimer interface [polypeptide binding]; other site 544556000388 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 544556000389 heterodimer interface [polypeptide binding]; other site 544556000390 homodimer interface [polypeptide binding]; other site 544556000391 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 544556000392 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 544556000393 23S rRNA interface [nucleotide binding]; other site 544556000394 L7/L12 interface [polypeptide binding]; other site 544556000395 putative thiostrepton binding site; other site 544556000396 L25 interface [polypeptide binding]; other site 544556000397 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 544556000398 mRNA/rRNA interface [nucleotide binding]; other site 544556000399 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 544556000400 23S rRNA interface [nucleotide binding]; other site 544556000401 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 544556000402 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 544556000403 core dimer interface [polypeptide binding]; other site 544556000404 peripheral dimer interface [polypeptide binding]; other site 544556000405 L10 interface [polypeptide binding]; other site 544556000406 L11 interface [polypeptide binding]; other site 544556000407 putative EF-Tu interaction site [polypeptide binding]; other site 544556000408 putative EF-G interaction site [polypeptide binding]; other site 544556000409 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 544556000410 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 544556000411 S-adenosylmethionine binding site [chemical binding]; other site 544556000412 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 544556000413 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 544556000414 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 544556000415 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 544556000416 RPB1 interaction site [polypeptide binding]; other site 544556000417 RPB10 interaction site [polypeptide binding]; other site 544556000418 RPB11 interaction site [polypeptide binding]; other site 544556000419 RPB3 interaction site [polypeptide binding]; other site 544556000420 RPB12 interaction site [polypeptide binding]; other site 544556000421 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 544556000422 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 544556000423 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 544556000424 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 544556000425 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 544556000426 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 544556000427 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 544556000428 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 544556000429 G-loop; other site 544556000430 DNA binding site [nucleotide binding] 544556000431 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 544556000432 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 544556000433 S17 interaction site [polypeptide binding]; other site 544556000434 S8 interaction site; other site 544556000435 16S rRNA interaction site [nucleotide binding]; other site 544556000436 streptomycin interaction site [chemical binding]; other site 544556000437 23S rRNA interaction site [nucleotide binding]; other site 544556000438 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 544556000439 30S ribosomal protein S7; Validated; Region: PRK05302 544556000440 elongation factor G; Reviewed; Region: PRK00007 544556000441 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 544556000442 G1 box; other site 544556000443 putative GEF interaction site [polypeptide binding]; other site 544556000444 GTP/Mg2+ binding site [chemical binding]; other site 544556000445 Switch I region; other site 544556000446 G2 box; other site 544556000447 G3 box; other site 544556000448 Switch II region; other site 544556000449 G4 box; other site 544556000450 G5 box; other site 544556000451 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 544556000452 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 544556000453 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 544556000454 elongation factor Tu; Reviewed; Region: PRK00049 544556000455 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 544556000456 G1 box; other site 544556000457 GEF interaction site [polypeptide binding]; other site 544556000458 GTP/Mg2+ binding site [chemical binding]; other site 544556000459 Switch I region; other site 544556000460 G2 box; other site 544556000461 G3 box; other site 544556000462 Switch II region; other site 544556000463 G4 box; other site 544556000464 G5 box; other site 544556000465 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 544556000466 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 544556000467 Antibiotic Binding Site [chemical binding]; other site 544556000468 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 544556000469 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 544556000470 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 544556000471 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 544556000472 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 544556000473 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 544556000474 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 544556000475 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 544556000476 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 544556000477 putative translocon binding site; other site 544556000478 protein-rRNA interface [nucleotide binding]; other site 544556000479 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 544556000480 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 544556000481 G-X-X-G motif; other site 544556000482 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 544556000483 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 544556000484 23S rRNA interface [nucleotide binding]; other site 544556000485 5S rRNA interface [nucleotide binding]; other site 544556000486 putative antibiotic binding site [chemical binding]; other site 544556000487 L25 interface [polypeptide binding]; other site 544556000488 L27 interface [polypeptide binding]; other site 544556000489 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 544556000490 23S rRNA interface [nucleotide binding]; other site 544556000491 putative translocon interaction site; other site 544556000492 signal recognition particle (SRP54) interaction site; other site 544556000493 L23 interface [polypeptide binding]; other site 544556000494 trigger factor interaction site; other site 544556000495 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 544556000496 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 544556000497 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 544556000498 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 544556000499 RNA binding site [nucleotide binding]; other site 544556000500 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 544556000501 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 544556000502 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 544556000503 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 544556000504 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 544556000505 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 544556000506 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 544556000507 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 544556000508 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 544556000509 5S rRNA interface [nucleotide binding]; other site 544556000510 L27 interface [polypeptide binding]; other site 544556000511 23S rRNA interface [nucleotide binding]; other site 544556000512 L5 interface [polypeptide binding]; other site 544556000513 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 544556000514 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 544556000515 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 544556000516 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 544556000517 23S rRNA binding site [nucleotide binding]; other site 544556000518 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 544556000519 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 544556000520 SecY translocase; Region: SecY; pfam00344 544556000521 adenylate kinase; Reviewed; Region: adk; PRK00279 544556000522 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 544556000523 AMP-binding site [chemical binding]; other site 544556000524 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 544556000525 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 544556000526 active site 544556000527 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 544556000528 rRNA binding site [nucleotide binding]; other site 544556000529 predicted 30S ribosome binding site; other site 544556000530 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 544556000531 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 544556000532 30S ribosomal protein S13; Region: bact_S13; TIGR03631 544556000533 30S ribosomal protein S11; Validated; Region: PRK05309 544556000534 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 544556000535 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 544556000536 alphaNTD - beta interaction site [polypeptide binding]; other site 544556000537 alphaNTD homodimer interface [polypeptide binding]; other site 544556000538 alphaNTD - beta' interaction site [polypeptide binding]; other site 544556000539 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 544556000540 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 544556000541 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 544556000542 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 544556000543 Walker A/P-loop; other site 544556000544 ATP binding site [chemical binding]; other site 544556000545 Q-loop/lid; other site 544556000546 ABC transporter signature motif; other site 544556000547 Walker B; other site 544556000548 D-loop; other site 544556000549 H-loop/switch region; other site 544556000550 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 544556000551 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 544556000552 Walker A/P-loop; other site 544556000553 ATP binding site [chemical binding]; other site 544556000554 Q-loop/lid; other site 544556000555 ABC transporter signature motif; other site 544556000556 Walker B; other site 544556000557 D-loop; other site 544556000558 H-loop/switch region; other site 544556000559 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 544556000560 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 544556000561 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 544556000562 dimerization interface 3.5A [polypeptide binding]; other site 544556000563 active site 544556000564 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 544556000565 23S rRNA interface [nucleotide binding]; other site 544556000566 L3 interface [polypeptide binding]; other site 544556000567 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 544556000568 Protein of unknown function (DUF2521); Region: DUF2521; pfam10730 544556000569 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 544556000570 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 544556000571 active site 544556000572 Domain of unknown function DUF59; Region: DUF59; cl00941 544556000573 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 544556000574 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 544556000575 Walker A motif; other site 544556000576 KinB-signalling pathway activation in sporulation; Region: KbaA; pfam14089 544556000577 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 544556000578 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 544556000579 Arginase family; Region: Arginase; cd09989 544556000580 agmatinase; Region: agmatinase; TIGR01230 544556000581 active site 544556000582 Mn binding site [ion binding]; other site 544556000583 oligomer interface [polypeptide binding]; other site 544556000584 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 544556000585 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 544556000586 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 544556000587 DNA binding residues [nucleotide binding] 544556000588 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 544556000589 Putative zinc-finger; Region: zf-HC2; pfam13490 544556000590 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 544556000591 Uncharacterized conserved protein [Function unknown]; Region: COG1624 544556000592 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 544556000593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 544556000594 YbbR-like protein; Region: YbbR; pfam07949 544556000595 YbbR-like protein; Region: YbbR; pfam07949 544556000596 YbbR-like protein; Region: YbbR; pfam07949 544556000597 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 544556000598 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 544556000599 active site 544556000600 substrate binding site [chemical binding]; other site 544556000601 metal binding site [ion binding]; metal-binding site 544556000602 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 544556000603 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 544556000604 glutaminase active site [active] 544556000605 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 544556000606 dimer interface [polypeptide binding]; other site 544556000607 active site 544556000608 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 544556000609 dimer interface [polypeptide binding]; other site 544556000610 active site 544556000611 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556000612 Transposase; Region: DEDD_Tnp_IS110; pfam01548 544556000613 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 544556000614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556000615 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 544556000616 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 544556000617 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 544556000618 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 544556000619 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 544556000620 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 544556000621 DNA binding residues [nucleotide binding] 544556000622 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 544556000623 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 544556000624 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 544556000625 Family of unknown function (DUF633); Region: DUF633; pfam04816 544556000626 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 544556000627 Uncharacterized conserved protein [Function unknown]; Region: COG0327 544556000628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 544556000629 Uncharacterized conserved protein [Function unknown]; Region: COG0327 544556000630 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 544556000631 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 544556000632 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 544556000633 YqfQ-like protein; Region: YqfQ; pfam14181 544556000634 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 544556000635 DEAD-like helicases superfamily; Region: DEXDc; smart00487 544556000636 ATP binding site [chemical binding]; other site 544556000637 Mg++ binding site [ion binding]; other site 544556000638 motif III; other site 544556000639 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 544556000640 nucleotide binding region [chemical binding]; other site 544556000641 ATP-binding site [chemical binding]; other site 544556000642 endonuclease IV; Provisional; Region: PRK01060 544556000643 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 544556000644 AP (apurinic/apyrimidinic) site pocket; other site 544556000645 DNA interaction; other site 544556000646 Metal-binding active site; metal-binding site 544556000647 Protein of unknown function (DUF2624); Region: DUF2624; pfam11116 544556000648 Uncharacterized conserved protein [Function unknown]; Region: COG1284 544556000649 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 544556000650 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 544556000651 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 544556000652 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 544556000653 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 544556000654 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 544556000655 ABC-ATPase subunit interface; other site 544556000656 dimer interface [polypeptide binding]; other site 544556000657 putative PBP binding regions; other site 544556000658 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 544556000659 metal binding site 2 [ion binding]; metal-binding site 544556000660 putative DNA binding helix; other site 544556000661 metal binding site 1 [ion binding]; metal-binding site 544556000662 dimer interface [polypeptide binding]; other site 544556000663 structural Zn2+ binding site [ion binding]; other site 544556000664 Uncharacterized conserved protein [Function unknown]; Region: COG5663 544556000665 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 544556000666 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 544556000667 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 544556000668 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 544556000669 phosphate binding protein; Region: ptsS_2; TIGR02136 544556000670 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 544556000671 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 544556000672 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 544556000673 dimer interface [polypeptide binding]; other site 544556000674 conserved gate region; other site 544556000675 putative PBP binding loops; other site 544556000676 ABC-ATPase subunit interface; other site 544556000677 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 544556000678 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 544556000679 dimer interface [polypeptide binding]; other site 544556000680 conserved gate region; other site 544556000681 putative PBP binding loops; other site 544556000682 ABC-ATPase subunit interface; other site 544556000683 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 544556000684 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 544556000685 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 544556000686 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 544556000687 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 544556000688 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556000689 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 544556000690 Major Facilitator Superfamily; Region: MFS_1; pfam07690 544556000691 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 544556000692 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 544556000693 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 544556000694 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 544556000695 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 544556000696 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 544556000697 Walker A/P-loop; other site 544556000698 ATP binding site [chemical binding]; other site 544556000699 Q-loop/lid; other site 544556000700 ABC transporter signature motif; other site 544556000701 Walker B; other site 544556000702 D-loop; other site 544556000703 H-loop/switch region; other site 544556000704 YceG-like family; Region: YceG; pfam02618 544556000705 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 544556000706 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 544556000707 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 544556000708 Integral membrane protein DUF92; Region: DUF92; pfam01940 544556000709 Rhomboid family; Region: Rhomboid; pfam01694 544556000710 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 544556000711 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 544556000712 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 544556000713 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 544556000714 nucleotide binding site [chemical binding]; other site 544556000715 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 544556000716 putative active site [active] 544556000717 Zn binding site [ion binding]; other site 544556000718 Protein of unknown function (DUF2759); Region: DUF2759; pfam10958 544556000719 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 544556000720 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 544556000721 Protein of unknown function (DUF2626); Region: DUF2626; pfam11117 544556000722 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 544556000723 putative DNA binding site [nucleotide binding]; other site 544556000724 dimerization interface [polypeptide binding]; other site 544556000725 Predicted transcriptional regulator [Transcription]; Region: COG2345 544556000726 putative Zn2+ binding site [ion binding]; other site 544556000727 DDE superfamily endonuclease; Region: DDE_5; cl17874 544556000728 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556000729 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 544556000730 Type II/IV secretion system protein; Region: T2SE; pfam00437 544556000731 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 544556000732 Walker A motif; other site 544556000733 ATP binding site [chemical binding]; other site 544556000734 Walker B motif; other site 544556000735 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 544556000736 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 544556000737 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 544556000738 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 544556000739 ComG operon protein 7; Region: ComGG; pfam14173 544556000740 YqzE-like protein; Region: YqzE; pfam14038 544556000741 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 544556000742 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 544556000743 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 544556000744 ATP binding site [chemical binding]; other site 544556000745 putative Mg++ binding site [ion binding]; other site 544556000746 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 544556000747 nucleotide binding region [chemical binding]; other site 544556000748 ATP-binding site [chemical binding]; other site 544556000749 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 544556000750 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 544556000751 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 544556000752 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 544556000753 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 544556000754 tetramer interface [polypeptide binding]; other site 544556000755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556000756 catalytic residue [active] 544556000757 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 544556000758 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 544556000759 tetramer interface [polypeptide binding]; other site 544556000760 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556000761 catalytic residue [active] 544556000762 MarR family; Region: MarR_2; pfam12802 544556000763 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 544556000764 ROK family; Region: ROK; pfam00480 544556000765 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 544556000766 active site residue [active] 544556000767 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 544556000768 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556000769 Transposase; Region: DEDD_Tnp_IS110; pfam01548 544556000770 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 544556000771 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556000772 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 544556000773 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556000774 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 544556000775 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556000776 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556000777 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 544556000778 active site 544556000779 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; pfam10094 544556000780 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 544556000781 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 544556000782 FeS/SAM binding site; other site 544556000783 manganese transport transcriptional regulator; Provisional; Region: PRK03902 544556000784 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 544556000785 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 544556000786 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 544556000787 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 544556000788 active site 544556000789 nucleophile elbow; other site 544556000790 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 544556000791 Conserved membrane protein YqhR; Region: YqhR; pfam11085 544556000792 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 544556000793 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 544556000794 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 544556000795 active site 544556000796 elongation factor P; Validated; Region: PRK00529 544556000797 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 544556000798 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 544556000799 RNA binding site [nucleotide binding]; other site 544556000800 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 544556000801 RNA binding site [nucleotide binding]; other site 544556000802 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 544556000803 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 544556000804 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 544556000805 Walker A motif; other site 544556000806 ATP binding site [chemical binding]; other site 544556000807 Walker B motif; other site 544556000808 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 544556000809 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 544556000810 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 544556000811 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 544556000812 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 544556000813 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 544556000814 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 544556000815 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 544556000816 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 544556000817 carboxyltransferase (CT) interaction site; other site 544556000818 biotinylation site [posttranslational modification]; other site 544556000819 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 544556000820 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 544556000821 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 544556000822 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 544556000823 Asp23 family; Region: Asp23; pfam03780 544556000824 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 544556000825 putative RNA binding site [nucleotide binding]; other site 544556000826 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 544556000827 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 544556000828 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 544556000829 homodimer interface [polypeptide binding]; other site 544556000830 NADP binding site [chemical binding]; other site 544556000831 substrate binding site [chemical binding]; other site 544556000832 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 544556000833 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 544556000834 generic binding surface II; other site 544556000835 generic binding surface I; other site 544556000836 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 544556000837 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14063 544556000838 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 544556000839 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 544556000840 substrate binding pocket [chemical binding]; other site 544556000841 chain length determination region; other site 544556000842 substrate-Mg2+ binding site; other site 544556000843 catalytic residues [active] 544556000844 aspartate-rich region 1; other site 544556000845 active site lid residues [active] 544556000846 aspartate-rich region 2; other site 544556000847 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 544556000848 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 544556000849 TPP-binding site; other site 544556000850 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 544556000851 PYR/PP interface [polypeptide binding]; other site 544556000852 dimer interface [polypeptide binding]; other site 544556000853 TPP binding site [chemical binding]; other site 544556000854 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 544556000855 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 544556000856 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 544556000857 RNA binding surface [nucleotide binding]; other site 544556000858 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 544556000859 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 544556000860 arginine repressor; Provisional; Region: PRK04280 544556000861 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 544556000862 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 544556000863 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 544556000864 Walker A/P-loop; other site 544556000865 ATP binding site [chemical binding]; other site 544556000866 Q-loop/lid; other site 544556000867 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 544556000868 ABC transporter signature motif; other site 544556000869 Walker B; other site 544556000870 D-loop; other site 544556000871 H-loop/switch region; other site 544556000872 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 544556000873 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 544556000874 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 544556000875 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 544556000876 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 544556000877 active site 544556000878 phosphorylation site [posttranslational modification] 544556000879 intermolecular recognition site; other site 544556000880 dimerization interface [polypeptide binding]; other site 544556000881 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 544556000882 YycC-like protein; Region: YycC; pfam14174 544556000883 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 544556000884 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 544556000885 active site 544556000886 catalytic site [active] 544556000887 metal binding site [ion binding]; metal-binding site 544556000888 dimer interface [polypeptide binding]; other site 544556000889 Protein of unknown function (DUF2627); Region: DUF2627; pfam11118 544556000890 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 544556000891 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 544556000892 putative active site [active] 544556000893 heme pocket [chemical binding]; other site 544556000894 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 544556000895 putative active site [active] 544556000896 heme pocket [chemical binding]; other site 544556000897 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 544556000898 Walker A motif; other site 544556000899 ATP binding site [chemical binding]; other site 544556000900 Walker B motif; other site 544556000901 arginine finger; other site 544556000902 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 544556000903 phosphate butyryltransferase; Validated; Region: PRK07742 544556000904 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 544556000905 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 544556000906 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 544556000907 NAD binding site [chemical binding]; other site 544556000908 Phe binding site; other site 544556000909 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 544556000910 nucleotide binding site [chemical binding]; other site 544556000911 Acetokinase family; Region: Acetate_kinase; cl17229 544556000912 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 544556000913 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 544556000914 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 544556000915 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 544556000916 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 544556000917 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 544556000918 tetramer interface [polypeptide binding]; other site 544556000919 TPP-binding site [chemical binding]; other site 544556000920 heterodimer interface [polypeptide binding]; other site 544556000921 phosphorylation loop region [posttranslational modification] 544556000922 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 544556000923 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 544556000924 alpha subunit interface [polypeptide binding]; other site 544556000925 TPP binding site [chemical binding]; other site 544556000926 heterodimer interface [polypeptide binding]; other site 544556000927 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 544556000928 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 544556000929 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 544556000930 E3 interaction surface; other site 544556000931 lipoyl attachment site [posttranslational modification]; other site 544556000932 e3 binding domain; Region: E3_binding; pfam02817 544556000933 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 544556000934 Uncharacterized conserved protein [Function unknown]; Region: COG3391 544556000935 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 544556000936 structural tetrad; other site 544556000937 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 544556000938 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 544556000939 active site 544556000940 phosphorylation site [posttranslational modification] 544556000941 intermolecular recognition site; other site 544556000942 dimerization interface [polypeptide binding]; other site 544556000943 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 544556000944 DNA binding site [nucleotide binding] 544556000945 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 544556000946 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 544556000947 dimerization interface [polypeptide binding]; other site 544556000948 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 544556000949 dimer interface [polypeptide binding]; other site 544556000950 phosphorylation site [posttranslational modification] 544556000951 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 544556000952 ATP binding site [chemical binding]; other site 544556000953 Mg2+ binding site [ion binding]; other site 544556000954 G-X-G motif; other site 544556000955 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 544556000956 putative active site [active] 544556000957 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 544556000958 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 544556000959 heterodimer interface [polypeptide binding]; other site 544556000960 substrate interaction site [chemical binding]; other site 544556000961 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 544556000962 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 544556000963 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 544556000964 active site 544556000965 substrate binding site [chemical binding]; other site 544556000966 coenzyme B12 binding site [chemical binding]; other site 544556000967 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 544556000968 B12 binding site [chemical binding]; other site 544556000969 cobalt ligand [ion binding]; other site 544556000970 membrane ATPase/protein kinase; Provisional; Region: PRK09435 544556000971 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 544556000972 Walker A; other site 544556000973 Disulphide isomerase; Region: Disulph_isomer; pfam06491 544556000974 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 544556000975 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 544556000976 active site 544556000977 NTP binding site [chemical binding]; other site 544556000978 metal binding triad [ion binding]; metal-binding site 544556000979 antibiotic binding site [chemical binding]; other site 544556000980 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 544556000981 Methyltransferase domain; Region: Methyltransf_26; pfam13659 544556000982 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 544556000983 HsdM N-terminal domain; Region: HsdM_N; pfam12161 544556000984 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 544556000985 Methyltransferase domain; Region: Methyltransf_26; pfam13659 544556000986 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 544556000987 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 544556000988 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 544556000989 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 544556000990 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 544556000991 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 544556000992 ATP binding site [chemical binding]; other site 544556000993 putative Mg++ binding site [ion binding]; other site 544556000994 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 544556000995 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 544556000996 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 544556000997 ATP binding site [chemical binding]; other site 544556000998 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 544556000999 putative Mg++ binding site [ion binding]; other site 544556001000 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 544556001001 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 544556001002 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 544556001003 active site 544556001004 NTP binding site [chemical binding]; other site 544556001005 metal binding triad [ion binding]; metal-binding site 544556001006 antibiotic binding site [chemical binding]; other site 544556001007 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 544556001008 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 544556001009 Walker A/P-loop; other site 544556001010 ATP binding site [chemical binding]; other site 544556001011 Q-loop/lid; other site 544556001012 ABC transporter signature motif; other site 544556001013 Walker B; other site 544556001014 D-loop; other site 544556001015 H-loop/switch region; other site 544556001016 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 544556001017 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 544556001018 pyruvate dehydrogenase E1 component beta subunit; Validated; Region: odpB; CHL00144 544556001019 Predicted membrane protein [Function unknown]; Region: COG4129 544556001020 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 544556001021 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 544556001022 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 544556001023 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 544556001024 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 544556001025 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 544556001026 dimer interface [polypeptide binding]; other site 544556001027 substrate binding site [chemical binding]; other site 544556001028 metal binding site [ion binding]; metal-binding site 544556001029 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 544556001030 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 544556001031 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 544556001032 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 544556001033 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556001034 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 544556001035 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556001036 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 544556001037 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 544556001038 Walker A motif; other site 544556001039 ATP binding site [chemical binding]; other site 544556001040 Walker B motif; other site 544556001041 arginine finger; other site 544556001042 Winged helix-turn helix; Region: HTH_29; pfam13551 544556001043 Homeodomain-like domain; Region: HTH_32; pfam13565 544556001044 Integrase core domain; Region: rve; pfam00665 544556001045 Integrase core domain; Region: rve_3; pfam13683 544556001046 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 544556001047 Predicted permeases [General function prediction only]; Region: COG0701 544556001048 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556001049 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 544556001050 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 544556001051 putative DNA binding site [nucleotide binding]; other site 544556001052 putative Zn2+ binding site [ion binding]; other site 544556001053 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 544556001054 Integrase core domain; Region: rve; pfam00665 544556001055 DDE domain; Region: DDE_Tnp_IS240; pfam13610 544556001056 Integrase core domain; Region: rve_3; cl15866 544556001057 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 544556001058 peptidase T-like protein; Region: PepT-like; TIGR01883 544556001059 metal binding site [ion binding]; metal-binding site 544556001060 putative dimer interface [polypeptide binding]; other site 544556001061 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 544556001062 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 544556001063 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 544556001064 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 544556001065 DDE superfamily endonuclease; Region: DDE_5; cl17874 544556001066 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556001067 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 544556001068 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 544556001069 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 544556001070 Walker A motif; other site 544556001071 ATP binding site [chemical binding]; other site 544556001072 Walker B motif; other site 544556001073 arginine finger; other site 544556001074 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 544556001075 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 544556001076 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 544556001077 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556001078 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556001079 transposase/IS protein; Provisional; Region: PRK09183 544556001080 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 544556001081 Walker A motif; other site 544556001082 ATP binding site [chemical binding]; other site 544556001083 Walker B motif; other site 544556001084 arginine finger; other site 544556001085 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 544556001086 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 544556001087 non-specific DNA binding site [nucleotide binding]; other site 544556001088 salt bridge; other site 544556001089 sequence-specific DNA binding site [nucleotide binding]; other site 544556001090 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 544556001091 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 544556001092 Walker A/P-loop; other site 544556001093 ATP binding site [chemical binding]; other site 544556001094 Q-loop/lid; other site 544556001095 ABC transporter signature motif; other site 544556001096 Walker B; other site 544556001097 D-loop; other site 544556001098 H-loop/switch region; other site 544556001099 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 544556001100 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 544556001101 ATP binding site [chemical binding]; other site 544556001102 Mg2+ binding site [ion binding]; other site 544556001103 G-X-G motif; other site 544556001104 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 544556001105 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 544556001106 active site 544556001107 phosphorylation site [posttranslational modification] 544556001108 intermolecular recognition site; other site 544556001109 dimerization interface [polypeptide binding]; other site 544556001110 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 544556001111 DNA binding site [nucleotide binding] 544556001112 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 544556001113 beta-galactosidase; Region: BGL; TIGR03356 544556001114 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 544556001115 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 544556001116 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 544556001117 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 544556001118 ribonuclease Z; Region: RNase_Z; TIGR02651 544556001119 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 544556001120 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 544556001121 active site 544556001122 FMN binding site [chemical binding]; other site 544556001123 substrate binding site [chemical binding]; other site 544556001124 homotetramer interface [polypeptide binding]; other site 544556001125 catalytic residue [active] 544556001126 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK07679 544556001127 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 544556001128 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 544556001129 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 544556001130 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 544556001131 NAD(P) binding site [chemical binding]; other site 544556001132 active site 544556001133 YqzH-like protein; Region: YqzH; pfam14164 544556001134 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 544556001135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 544556001136 Protein of unknown function (DUF2552); Region: DUF2552; pfam10827 544556001137 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 544556001138 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 544556001139 putative substrate translocation pore; other site 544556001140 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 544556001141 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 544556001142 active site 544556001143 catalytic tetrad [active] 544556001144 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 544556001145 dimer interface [polypeptide binding]; other site 544556001146 ADP-ribose binding site [chemical binding]; other site 544556001147 active site 544556001148 nudix motif; other site 544556001149 metal binding site [ion binding]; metal-binding site 544556001150 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 544556001151 PHP-associated; Region: PHP_C; pfam13263 544556001152 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 544556001153 DNA binding site [nucleotide binding] 544556001154 stage II sporulation protein M; Region: spo_II_M; TIGR02831 544556001155 ferric uptake regulator; Provisional; Region: fur; PRK09462 544556001156 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 544556001157 metal binding site 2 [ion binding]; metal-binding site 544556001158 putative DNA binding helix; other site 544556001159 metal binding site 1 [ion binding]; metal-binding site 544556001160 dimer interface [polypeptide binding]; other site 544556001161 structural Zn2+ binding site [ion binding]; other site 544556001162 Protein of unknown function (DUF4227); Region: DUF4227; pfam14004 544556001163 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 544556001164 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 544556001165 active site 544556001166 Int/Topo IB signature motif; other site 544556001167 phosphopentomutase; Provisional; Region: PRK05362 544556001168 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 544556001169 purine nucleoside phosphorylase; Provisional; Region: PRK08202 544556001170 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 544556001171 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 544556001172 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 544556001173 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 544556001174 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 544556001175 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 544556001176 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 544556001177 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cd06844 544556001178 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 544556001179 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 544556001180 ATP binding site [chemical binding]; other site 544556001181 Mg2+ binding site [ion binding]; other site 544556001182 G-X-G motif; other site 544556001183 sporulation sigma factor SigF; Validated; Region: PRK05572 544556001184 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 544556001185 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 544556001186 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 544556001187 DNA binding residues [nucleotide binding] 544556001188 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 544556001189 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 544556001190 SpoVA protein; Region: SpoVA; cl04298 544556001191 stage V sporulation protein AD; Validated; Region: PRK08304 544556001192 stage V sporulation protein AD; Provisional; Region: PRK12404 544556001193 SpoVA protein; Region: SpoVA; pfam03862 544556001194 Stage V sporulation protein AE1; Region: SpoVAE; pfam14097 544556001195 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 544556001196 diaminopimelate decarboxylase; Region: lysA; TIGR01048 544556001197 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 544556001198 active site 544556001199 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 544556001200 substrate binding site [chemical binding]; other site 544556001201 catalytic residues [active] 544556001202 dimer interface [polypeptide binding]; other site 544556001203 Predicted secreted protein [Function unknown]; Region: COG4086 544556001204 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 544556001205 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 544556001206 active site 544556001207 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 544556001208 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 544556001209 catalytic motif [active] 544556001210 Zn binding site [ion binding]; other site 544556001211 RibD C-terminal domain; Region: RibD_C; cl17279 544556001212 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 544556001213 Lumazine binding domain; Region: Lum_binding; pfam00677 544556001214 Lumazine binding domain; Region: Lum_binding; pfam00677 544556001215 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 544556001216 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 544556001217 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 544556001218 dimerization interface [polypeptide binding]; other site 544556001219 active site 544556001220 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 544556001221 homopentamer interface [polypeptide binding]; other site 544556001222 active site 544556001223 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 544556001224 Coenzyme A binding pocket [chemical binding]; other site 544556001225 Domain of unknown function (DUF309); Region: DUF309; pfam03745 544556001226 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 544556001227 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 544556001228 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 544556001229 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 544556001230 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 544556001231 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 544556001232 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 544556001233 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 544556001234 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 544556001235 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 544556001236 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 544556001237 RNA binding surface [nucleotide binding]; other site 544556001238 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 544556001239 active site 544556001240 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 544556001241 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 544556001242 catalytic residues [active] 544556001243 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 544556001244 Double zinc ribbon; Region: DZR; pfam12773 544556001245 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 544556001246 ResB-like family; Region: ResB; pfam05140 544556001247 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 544556001248 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 544556001249 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 544556001250 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 544556001251 active site 544556001252 phosphorylation site [posttranslational modification] 544556001253 intermolecular recognition site; other site 544556001254 dimerization interface [polypeptide binding]; other site 544556001255 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 544556001256 DNA binding site [nucleotide binding] 544556001257 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 544556001258 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 544556001259 dimerization interface [polypeptide binding]; other site 544556001260 PAS domain; Region: PAS; smart00091 544556001261 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 544556001262 dimer interface [polypeptide binding]; other site 544556001263 phosphorylation site [posttranslational modification] 544556001264 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 544556001265 ATP binding site [chemical binding]; other site 544556001266 Mg2+ binding site [ion binding]; other site 544556001267 G-X-G motif; other site 544556001268 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 544556001269 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 544556001270 active site 544556001271 dimer interface [polypeptide binding]; other site 544556001272 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 544556001273 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 544556001274 active site 544556001275 trimer interface [polypeptide binding]; other site 544556001276 allosteric site; other site 544556001277 active site lid [active] 544556001278 hexamer (dimer of trimers) interface [polypeptide binding]; other site 544556001279 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 544556001280 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 544556001281 DNA-binding site [nucleotide binding]; DNA binding site 544556001282 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 544556001283 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 544556001284 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 544556001285 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 544556001286 active site turn [active] 544556001287 phosphorylation site [posttranslational modification] 544556001288 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 544556001289 phosphate binding site [ion binding]; other site 544556001290 Histidine kinase; Region: His_kinase; pfam06580 544556001291 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; cl00075 544556001292 Mg2+ binding site [ion binding]; other site 544556001293 Response regulator receiver domain; Region: Response_reg; pfam00072 544556001294 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 544556001295 active site 544556001296 phosphorylation site [posttranslational modification] 544556001297 intermolecular recognition site; other site 544556001298 dimerization interface [polypeptide binding]; other site 544556001299 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 544556001300 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 544556001301 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 544556001302 Site-specific recombinase; Region: SpecificRecomb; cl15411 544556001303 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 544556001304 amino acid transporter; Region: 2A0306; TIGR00909 544556001305 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 544556001306 pentamer interface [polypeptide binding]; other site 544556001307 dodecaamer interface [polypeptide binding]; other site 544556001308 YvbH-like oligomerisation region; Region: YvbH_ext; pfam11724 544556001309 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 544556001310 nudix motif; other site 544556001311 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 544556001312 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 544556001313 putative binding site residues; other site 544556001314 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 544556001315 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 544556001316 putative PBP binding regions; other site 544556001317 ABC-ATPase subunit interface; other site 544556001318 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 544556001319 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 544556001320 Walker A/P-loop; other site 544556001321 ATP binding site [chemical binding]; other site 544556001322 Q-loop/lid; other site 544556001323 ABC transporter signature motif; other site 544556001324 Walker B; other site 544556001325 D-loop; other site 544556001326 H-loop/switch region; other site 544556001327 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 544556001328 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 544556001329 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 544556001330 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 544556001331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556001332 homodimer interface [polypeptide binding]; other site 544556001333 catalytic residue [active] 544556001334 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 544556001335 cobalamin synthase; Reviewed; Region: cobS; PRK00235 544556001336 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 544556001337 catalytic core [active] 544556001338 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 544556001339 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 544556001340 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 544556001341 ATP binding site [chemical binding]; other site 544556001342 dimerization interface [polypeptide binding]; other site 544556001343 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 544556001344 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 544556001345 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 544556001346 DNA binding residues [nucleotide binding] 544556001347 histidinol-phosphatase; Provisional; Region: PRK07328 544556001348 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 544556001349 active site 544556001350 dimer interface [polypeptide binding]; other site 544556001351 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 544556001352 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 544556001353 ligand binding site [chemical binding]; other site 544556001354 NAD binding site [chemical binding]; other site 544556001355 dimerization interface [polypeptide binding]; other site 544556001356 catalytic site [active] 544556001357 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 544556001358 putative L-serine binding site [chemical binding]; other site 544556001359 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 544556001360 dimer interface [polypeptide binding]; other site 544556001361 substrate binding site [chemical binding]; other site 544556001362 metal binding sites [ion binding]; metal-binding site 544556001363 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 544556001364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 544556001365 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 544556001366 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 544556001367 ATP binding site [chemical binding]; other site 544556001368 putative Mg++ binding site [ion binding]; other site 544556001369 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 544556001370 nucleotide binding region [chemical binding]; other site 544556001371 ATP-binding site [chemical binding]; other site 544556001372 CAAX protease self-immunity; Region: Abi; pfam02517 544556001373 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556001374 Protein of unknown function (DUF2663); Region: DUF2663; pfam10864 544556001375 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 544556001376 dimanganese center [ion binding]; other site 544556001377 CotJB protein; Region: CotJB; pfam12652 544556001378 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 544556001379 adaptor protein; Provisional; Region: PRK02899 544556001380 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 544556001381 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 544556001382 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 544556001383 NAD(P) binding site [chemical binding]; other site 544556001384 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 544556001385 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 544556001386 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 544556001387 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 544556001388 active site 544556001389 homotetramer interface [polypeptide binding]; other site 544556001390 homodimer interface [polypeptide binding]; other site 544556001391 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 544556001392 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 544556001393 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 544556001394 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 544556001395 germination protein YpeB; Region: spore_YpeB; TIGR02889 544556001396 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 544556001397 Flagellar protein YcgR; Region: YcgR_2; pfam12945 544556001398 PilZ domain; Region: PilZ; pfam07238 544556001399 cytidylate kinase; Provisional; Region: cmk; PRK00023 544556001400 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 544556001401 CMP-binding site; other site 544556001402 The sites determining sugar specificity; other site 544556001403 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 544556001404 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 544556001405 putative acyl-acceptor binding pocket; other site 544556001406 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 544556001407 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 544556001408 RNA binding site [nucleotide binding]; other site 544556001409 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 544556001410 RNA binding site [nucleotide binding]; other site 544556001411 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 544556001412 RNA binding site [nucleotide binding]; other site 544556001413 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 544556001414 RNA binding site [nucleotide binding]; other site 544556001415 YpzI-like protein; Region: YpzI; pfam14140 544556001416 YIEGIA protein; Region: YIEGIA; pfam14045 544556001417 GTP-binding protein Der; Reviewed; Region: PRK00093 544556001418 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 544556001419 G1 box; other site 544556001420 GTP/Mg2+ binding site [chemical binding]; other site 544556001421 Switch I region; other site 544556001422 G2 box; other site 544556001423 Switch II region; other site 544556001424 G3 box; other site 544556001425 G4 box; other site 544556001426 G5 box; other site 544556001427 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 544556001428 G1 box; other site 544556001429 GTP/Mg2+ binding site [chemical binding]; other site 544556001430 Switch I region; other site 544556001431 G2 box; other site 544556001432 G3 box; other site 544556001433 Switch II region; other site 544556001434 G4 box; other site 544556001435 G5 box; other site 544556001436 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 544556001437 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 544556001438 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 544556001439 Protein of unknown function (DUF2768); Region: DUF2768; pfam10966 544556001440 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 544556001441 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 544556001442 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 544556001443 IHF dimer interface [polypeptide binding]; other site 544556001444 IHF - DNA interface [nucleotide binding]; other site 544556001445 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 544556001446 homodecamer interface [polypeptide binding]; other site 544556001447 GTP cyclohydrolase I; Provisional; Region: PLN03044 544556001448 active site 544556001449 putative catalytic site residues [active] 544556001450 zinc binding site [ion binding]; other site 544556001451 GTP-CH-I/GFRP interaction surface; other site 544556001452 transcription attenuation protein MtrB; Provisional; Region: PRK13251 544556001453 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 544556001454 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 544556001455 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 544556001456 S-adenosylmethionine binding site [chemical binding]; other site 544556001457 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 544556001458 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 544556001459 substrate binding pocket [chemical binding]; other site 544556001460 chain length determination region; other site 544556001461 substrate-Mg2+ binding site; other site 544556001462 catalytic residues [active] 544556001463 aspartate-rich region 1; other site 544556001464 active site lid residues [active] 544556001465 aspartate-rich region 2; other site 544556001466 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 544556001467 active site 544556001468 multimer interface [polypeptide binding]; other site 544556001469 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 544556001470 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 544556001471 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 544556001472 S-adenosylmethionine binding site [chemical binding]; other site 544556001473 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 544556001474 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 544556001475 Tetramer interface [polypeptide binding]; other site 544556001476 active site 544556001477 FMN-binding site [chemical binding]; other site 544556001478 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 544556001479 active site 544556001480 dimer interface [polypeptide binding]; other site 544556001481 metal binding site [ion binding]; metal-binding site 544556001482 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 544556001483 homotrimer interaction site [polypeptide binding]; other site 544556001484 active site 544556001485 anthranilate synthase component I; Provisional; Region: PRK13569 544556001486 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 544556001487 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 544556001488 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 544556001489 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 544556001490 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 544556001491 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 544556001492 active site 544556001493 ribulose/triose binding site [chemical binding]; other site 544556001494 phosphate binding site [ion binding]; other site 544556001495 substrate (anthranilate) binding pocket [chemical binding]; other site 544556001496 product (indole) binding pocket [chemical binding]; other site 544556001497 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 544556001498 active site 544556001499 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 544556001500 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 544556001501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556001502 catalytic residue [active] 544556001503 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 544556001504 substrate binding site [chemical binding]; other site 544556001505 active site 544556001506 catalytic residues [active] 544556001507 heterodimer interface [polypeptide binding]; other site 544556001508 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 544556001509 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 544556001510 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556001511 homodimer interface [polypeptide binding]; other site 544556001512 catalytic residue [active] 544556001513 prephenate dehydrogenase; Validated; Region: PRK06545 544556001514 prephenate dehydrogenase; Validated; Region: PRK08507 544556001515 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 544556001516 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 544556001517 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 544556001518 hinge; other site 544556001519 active site 544556001520 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 544556001521 binding surface 544556001522 TPR motif; other site 544556001523 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 544556001524 binding surface 544556001525 TPR motif; other site 544556001526 hypothetical protein; Provisional; Region: PRK03636 544556001527 UPF0302 domain; Region: UPF0302; pfam08864 544556001528 IDEAL domain; Region: IDEAL; pfam08858 544556001529 Protein of unknown function (DUF2487); Region: DUF2487; pfam10673 544556001530 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 544556001531 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 544556001532 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 544556001533 iron-sulfur cluster [ion binding]; other site 544556001534 [2Fe-2S] cluster binding site [ion binding]; other site 544556001535 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 544556001536 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 544556001537 interchain domain interface [polypeptide binding]; other site 544556001538 intrachain domain interface; other site 544556001539 heme bH binding site [chemical binding]; other site 544556001540 Qi binding site; other site 544556001541 heme bL binding site [chemical binding]; other site 544556001542 Qo binding site; other site 544556001543 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 544556001544 intrachain domain interface; other site 544556001545 Qi binding site; other site 544556001546 Qo binding site; other site 544556001547 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 544556001548 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 544556001549 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 544556001550 sporulation protein YpjB; Region: spore_ypjB; TIGR02878 544556001551 Uncharacterized conserved protein [Function unknown]; Region: COG1284 544556001552 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 544556001553 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 544556001554 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 544556001555 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 544556001556 homodimer interface [polypeptide binding]; other site 544556001557 metal binding site [ion binding]; metal-binding site 544556001558 dihydrodipicolinate reductase; Provisional; Region: PRK00048 544556001559 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 544556001560 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 544556001561 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 544556001562 active site 544556001563 dimer interfaces [polypeptide binding]; other site 544556001564 catalytic residues [active] 544556001565 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 544556001566 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 544556001567 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 544556001568 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 544556001569 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 544556001570 active site 544556001571 NTP binding site [chemical binding]; other site 544556001572 metal binding triad [ion binding]; metal-binding site 544556001573 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 544556001574 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 544556001575 Biotin operon repressor [Transcription]; Region: BirA; COG1654 544556001576 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 544556001577 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 544556001578 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 544556001579 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 544556001580 oligomerization interface [polypeptide binding]; other site 544556001581 active site 544556001582 metal binding site [ion binding]; metal-binding site 544556001583 pantoate--beta-alanine ligase; Region: panC; TIGR00018 544556001584 Pantoate-beta-alanine ligase; Region: PanC; cd00560 544556001585 active site 544556001586 ATP-binding site [chemical binding]; other site 544556001587 pantoate-binding site; other site 544556001588 HXXH motif; other site 544556001589 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 544556001590 tetramerization interface [polypeptide binding]; other site 544556001591 active site 544556001592 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 544556001593 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 544556001594 active site 544556001595 catalytic site [active] 544556001596 substrate binding site [chemical binding]; other site 544556001597 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 544556001598 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 544556001599 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 544556001600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 544556001601 aspartate aminotransferase; Provisional; Region: PRK05764 544556001602 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 544556001603 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556001604 homodimer interface [polypeptide binding]; other site 544556001605 catalytic residue [active] 544556001606 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 544556001607 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 544556001608 putative dimer interface [polypeptide binding]; other site 544556001609 putative anticodon binding site; other site 544556001610 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 544556001611 homodimer interface [polypeptide binding]; other site 544556001612 motif 1; other site 544556001613 motif 2; other site 544556001614 active site 544556001615 motif 3; other site 544556001616 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 544556001617 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 544556001618 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 544556001619 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 544556001620 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 544556001621 minor groove reading motif; other site 544556001622 helix-hairpin-helix signature motif; other site 544556001623 substrate binding pocket [chemical binding]; other site 544556001624 active site 544556001625 Transglycosylase; Region: Transgly; pfam00912 544556001626 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 544556001627 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 544556001628 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 544556001629 Interdomain contacts; other site 544556001630 Cytokine receptor motif; other site 544556001631 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 544556001632 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 544556001633 YppF-like protein; Region: YppF; pfam14178 544556001634 YppG-like protein; Region: YppG; pfam14179 544556001635 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 544556001636 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 544556001637 putative dimer interface [polypeptide binding]; other site 544556001638 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 544556001639 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 544556001640 active site 544556001641 phosphorylation site [posttranslational modification] 544556001642 intermolecular recognition site; other site 544556001643 dimerization interface [polypeptide binding]; other site 544556001644 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 544556001645 DNA binding site [nucleotide binding] 544556001646 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 544556001647 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 544556001648 dimerization interface [polypeptide binding]; other site 544556001649 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 544556001650 dimer interface [polypeptide binding]; other site 544556001651 phosphorylation site [posttranslational modification] 544556001652 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 544556001653 ATP binding site [chemical binding]; other site 544556001654 Mg2+ binding site [ion binding]; other site 544556001655 G-X-G motif; other site 544556001656 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 544556001657 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 544556001658 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 544556001659 Melibiase; Region: Melibiase; pfam02065 544556001660 EcsC protein family; Region: EcsC; pfam12787 544556001661 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 544556001662 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 544556001663 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 544556001664 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 544556001665 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 544556001666 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 544556001667 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 544556001668 dimer interface [polypeptide binding]; other site 544556001669 conserved gate region; other site 544556001670 putative PBP binding loops; other site 544556001671 ABC-ATPase subunit interface; other site 544556001672 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 544556001673 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 544556001674 dimer interface [polypeptide binding]; other site 544556001675 conserved gate region; other site 544556001676 putative PBP binding loops; other site 544556001677 ABC-ATPase subunit interface; other site 544556001678 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 544556001679 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 544556001680 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 544556001681 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 544556001682 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 544556001683 galactokinase; Provisional; Region: PRK05322 544556001684 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 544556001685 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 544556001686 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 544556001687 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 544556001688 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 544556001689 NAD binding site [chemical binding]; other site 544556001690 homodimer interface [polypeptide binding]; other site 544556001691 active site 544556001692 substrate binding site [chemical binding]; other site 544556001693 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 544556001694 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 544556001695 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 544556001696 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 544556001697 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 544556001698 DNA binding site [nucleotide binding] 544556001699 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 544556001700 putative dimerization interface [polypeptide binding]; other site 544556001701 putative ligand binding site [chemical binding]; other site 544556001702 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 544556001703 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 544556001704 putative dimer interface [polypeptide binding]; other site 544556001705 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 544556001706 Transposase; Region: DEDD_Tnp_IS110; pfam01548 544556001707 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556001708 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 544556001709 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 544556001710 homodimer interaction site [polypeptide binding]; other site 544556001711 cofactor binding site; other site 544556001712 Protein of unknown function (DUF3221); Region: DUF3221; pfam11518 544556001713 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 544556001714 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 544556001715 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 544556001716 siderophore binding site; other site 544556001717 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 544556001718 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 544556001719 ABC-ATPase subunit interface; other site 544556001720 dimer interface [polypeptide binding]; other site 544556001721 putative PBP binding regions; other site 544556001722 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 544556001723 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 544556001724 ABC-ATPase subunit interface; other site 544556001725 dimer interface [polypeptide binding]; other site 544556001726 putative PBP binding regions; other site 544556001727 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 544556001728 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 544556001729 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 544556001730 glycogen branching enzyme; Provisional; Region: PRK12313 544556001731 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 544556001732 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 544556001733 active site 544556001734 catalytic site [active] 544556001735 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 544556001736 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 544556001737 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 544556001738 oligomer interface; other site 544556001739 ligand binding site; other site 544556001740 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 544556001741 dimer interface [polypeptide binding]; other site 544556001742 N-terminal domain interface [polypeptide binding]; other site 544556001743 sulfate 1 binding site; other site 544556001744 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 544556001745 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 544556001746 ligand binding site; other site 544556001747 oligomer interface; other site 544556001748 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 544556001749 dimer interface [polypeptide binding]; other site 544556001750 N-terminal domain interface [polypeptide binding]; other site 544556001751 sulfate 1 binding site; other site 544556001752 glycogen synthase; Provisional; Region: glgA; PRK00654 544556001753 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 544556001754 ADP-binding pocket [chemical binding]; other site 544556001755 homodimer interface [polypeptide binding]; other site 544556001756 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 544556001757 homodimer interface [polypeptide binding]; other site 544556001758 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 544556001759 active site pocket [active] 544556001760 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 544556001761 Probable transposase; Region: OrfB_IS605; pfam01385 544556001762 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 544556001763 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 544556001764 regulatory protein, yteA family; Region: bacill_yteA; TIGR02890 544556001765 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 544556001766 UbiA prenyltransferase family; Region: UbiA; pfam01040 544556001767 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 544556001768 chorismate binding enzyme; Region: Chorismate_bind; cl10555 544556001769 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 544556001770 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 544556001771 dimer interface [polypeptide binding]; other site 544556001772 tetramer interface [polypeptide binding]; other site 544556001773 PYR/PP interface [polypeptide binding]; other site 544556001774 TPP binding site [chemical binding]; other site 544556001775 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 544556001776 TPP-binding site; other site 544556001777 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 544556001778 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 544556001779 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 544556001780 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 544556001781 substrate binding site [chemical binding]; other site 544556001782 oxyanion hole (OAH) forming residues; other site 544556001783 trimer interface [polypeptide binding]; other site 544556001784 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 544556001785 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 544556001786 acyl-activating enzyme (AAE) consensus motif; other site 544556001787 putative AMP binding site [chemical binding]; other site 544556001788 putative active site [active] 544556001789 putative CoA binding site [chemical binding]; other site 544556001790 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 544556001791 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 544556001792 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 544556001793 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 544556001794 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 544556001795 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 544556001796 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 544556001797 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 544556001798 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 544556001799 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 544556001800 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 544556001801 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 544556001802 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 544556001803 metal binding site [ion binding]; metal-binding site 544556001804 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 544556001805 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 544556001806 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 544556001807 Haemolytic domain; Region: Haemolytic; pfam01809 544556001808 S-ribosylhomocysteinase; Provisional; Region: PRK02260 544556001809 Tumour necrosis factor receptor superfamily member 19; Region: RELT; pfam12606 544556001810 Ferritin-like domain; Region: Ferritin; pfam00210 544556001811 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 544556001812 dimerization interface [polypeptide binding]; other site 544556001813 DPS ferroxidase diiron center [ion binding]; other site 544556001814 ion pore; other site 544556001815 Holin family; Region: Phage_holin_4; pfam05105 544556001816 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 544556001817 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 544556001818 nudix motif; other site 544556001819 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 544556001820 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 544556001821 dimer interface [polypeptide binding]; other site 544556001822 conserved gate region; other site 544556001823 putative PBP binding loops; other site 544556001824 ABC-ATPase subunit interface; other site 544556001825 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 544556001826 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 544556001827 Walker A/P-loop; other site 544556001828 ATP binding site [chemical binding]; other site 544556001829 Q-loop/lid; other site 544556001830 ABC transporter signature motif; other site 544556001831 Walker B; other site 544556001832 D-loop; other site 544556001833 H-loop/switch region; other site 544556001834 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 544556001835 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 544556001836 catalytic residues [active] 544556001837 catalytic nucleophile [active] 544556001838 Recombinase; Region: Recombinase; pfam07508 544556001839 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 544556001840 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 544556001841 non-specific DNA binding site [nucleotide binding]; other site 544556001842 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 544556001843 salt bridge; other site 544556001844 sequence-specific DNA binding site [nucleotide binding]; other site 544556001845 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 544556001846 Catalytic site [active] 544556001847 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 544556001848 non-specific DNA binding site [nucleotide binding]; other site 544556001849 salt bridge; other site 544556001850 sequence-specific DNA binding site [nucleotide binding]; other site 544556001851 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 544556001852 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 544556001853 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 544556001854 recombination and repair protein RecT; Reviewed; Region: recT; PRK09846 544556001855 Transcriptional regulator; Region: Rrf2; cl17282 544556001856 hypothetical protein; Validated; Region: PRK08116 544556001857 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; cd01983 544556001858 dUTPase; Region: dUTPase_2; pfam08761 544556001859 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 544556001860 active site 544556001861 homodimer interface [polypeptide binding]; other site 544556001862 metal binding site [ion binding]; metal-binding site 544556001863 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 544556001864 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 544556001865 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 544556001866 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 544556001867 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 544556001868 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 544556001869 active site 544556001870 Phage terminase, small subunit; Region: Terminase_4; pfam05119 544556001871 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 544556001872 Phage portal protein; Region: Phage_portal; pfam04860 544556001873 Phage-related protein [Function unknown]; Region: COG4695 544556001874 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 544556001875 oligomer interface [polypeptide binding]; other site 544556001876 Clp protease; Region: CLP_protease; pfam00574 544556001877 active site residues [active] 544556001878 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 544556001879 Phage capsid family; Region: Phage_capsid; pfam05065 544556001880 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 544556001881 oligomerization interface [polypeptide binding]; other site 544556001882 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 544556001883 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 544556001884 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 544556001885 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 544556001886 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 544556001887 Phage tail protein; Region: Sipho_tail; pfam05709 544556001888 Phage-related holin (Lysis protein) [General function prediction only]; Region: COG4824 544556001889 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 544556001890 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 544556001891 active site 544556001892 metal binding site [ion binding]; metal-binding site 544556001893 Sporulation related domain; Region: SPOR; pfam05036 544556001894 Short C-terminal domain; Region: SHOCT; pfam09851 544556001895 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 544556001896 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 544556001897 non-specific DNA binding site [nucleotide binding]; other site 544556001898 salt bridge; other site 544556001899 sequence-specific DNA binding site [nucleotide binding]; other site 544556001900 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 544556001901 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 544556001902 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 544556001903 Replication-relaxation; Region: Replic_Relax; pfam13814 544556001904 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 544556001905 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 544556001906 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 544556001907 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 544556001908 Protein of unknown function (DUF2584); Region: DUF2584; pfam10763 544556001909 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 544556001910 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 544556001911 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 544556001912 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556001913 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 544556001914 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 544556001915 active site 544556001916 substrate-binding site [chemical binding]; other site 544556001917 metal-binding site [ion binding] 544556001918 ATP binding site [chemical binding]; other site 544556001919 S-adenosylmethionine synthetase; Validated; Region: PRK05250 544556001920 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 544556001921 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 544556001922 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 544556001923 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 544556001924 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 544556001925 trimer interface [polypeptide binding]; other site 544556001926 putative metal binding site [ion binding]; other site 544556001927 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 544556001928 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 544556001929 S-adenosylmethionine binding site [chemical binding]; other site 544556001930 Protein of unknown function (DUF2524); Region: DUF2524; pfam10732 544556001931 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 544556001932 Major Facilitator Superfamily; Region: MFS_1; pfam07690 544556001933 putative substrate translocation pore; other site 544556001934 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 544556001935 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 544556001936 HIGH motif; other site 544556001937 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 544556001938 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 544556001939 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 544556001940 active site 544556001941 KMSKS motif; other site 544556001942 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 544556001943 tRNA binding surface [nucleotide binding]; other site 544556001944 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 544556001945 active site residue [active] 544556001946 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 544556001947 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 544556001948 non-specific DNA binding site [nucleotide binding]; other site 544556001949 salt bridge; other site 544556001950 sequence-specific DNA binding site [nucleotide binding]; other site 544556001951 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 544556001952 binding surface 544556001953 TPR motif; other site 544556001954 Tetratricopeptide repeat; Region: TPR_12; pfam13424 544556001955 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 544556001956 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 544556001957 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 544556001958 Thermolysin metallopeptidase, catalytic domain; Region: Peptidase_M4; pfam01447 544556001959 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 544556001960 active site 544556001961 Zn binding site [ion binding]; other site 544556001962 Protein of unknown function (DUF2758); Region: DUF2758; pfam10957 544556001963 HI0933-like protein; Region: HI0933_like; pfam03486 544556001964 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 544556001965 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 544556001966 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 544556001967 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 544556001968 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 544556001969 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 544556001970 RNA binding surface [nucleotide binding]; other site 544556001971 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 544556001972 active site 544556001973 uracil binding [chemical binding]; other site 544556001974 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 544556001975 dipeptidase PepV; Reviewed; Region: PRK07318 544556001976 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 544556001977 active site 544556001978 metal binding site [ion binding]; metal-binding site 544556001979 sugar efflux transporter; Region: 2A0120; TIGR00899 544556001980 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 544556001981 putative substrate translocation pore; other site 544556001982 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 544556001983 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 544556001984 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 544556001985 pullulanase, type I; Region: pulA_typeI; TIGR02104 544556001986 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 544556001987 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 544556001988 Ca binding site [ion binding]; other site 544556001989 active site 544556001990 catalytic site [active] 544556001991 Phosphotransferase enzyme family; Region: APH; pfam01636 544556001992 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 544556001993 active site 544556001994 substrate binding site [chemical binding]; other site 544556001995 ATP binding site [chemical binding]; other site 544556001996 YtzH-like protein; Region: YtzH; pfam14165 544556001997 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 544556001998 S-adenosylmethionine binding site [chemical binding]; other site 544556001999 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 544556002000 Predicted small secreted protein [Function unknown]; Region: COG5584 544556002001 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 544556002002 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 544556002003 oligomer interface [polypeptide binding]; other site 544556002004 active site 544556002005 metal binding site [ion binding]; metal-binding site 544556002006 NTPase; Reviewed; Region: PRK03114 544556002007 hypothetical protein; Provisional; Region: PRK13668 544556002008 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 544556002009 putative tRNA-binding site [nucleotide binding]; other site 544556002010 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 544556002011 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 544556002012 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 544556002013 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 544556002014 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 544556002015 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 544556002016 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 544556002017 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 544556002018 Protein of unknown function (DUF2847); Region: DUF2847; pfam11009 544556002019 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 544556002020 Chorismate mutase type II; Region: CM_2; cl00693 544556002021 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 544556002022 catabolite control protein A; Region: ccpA; TIGR01481 544556002023 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 544556002024 DNA binding site [nucleotide binding] 544556002025 domain linker motif; other site 544556002026 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 544556002027 dimerization interface [polypeptide binding]; other site 544556002028 effector binding site; other site 544556002029 H+ Antiporter protein; Region: 2A0121; TIGR00900 544556002030 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 544556002031 putative substrate translocation pore; other site 544556002032 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 544556002033 dimerization interface [polypeptide binding]; other site 544556002034 putative DNA binding site [nucleotide binding]; other site 544556002035 putative Zn2+ binding site [ion binding]; other site 544556002036 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 544556002037 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 544556002038 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556002039 DDE superfamily endonuclease; Region: DDE_5; cl17874 544556002040 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556002041 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 544556002042 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 544556002043 active site 544556002044 Zn binding site [ion binding]; other site 544556002045 FOG: CBS domain [General function prediction only]; Region: COG0517 544556002046 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 544556002047 C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB; Region: ACT_AcuB; cd04883 544556002048 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 544556002049 Coenzyme A binding pocket [chemical binding]; other site 544556002050 acetyl-CoA synthetase; Provisional; Region: PRK04319 544556002051 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 544556002052 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 544556002053 active site 544556002054 acyl-activating enzyme (AAE) consensus motif; other site 544556002055 putative CoA binding site [chemical binding]; other site 544556002056 AMP binding site [chemical binding]; other site 544556002057 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 544556002058 Transglycosylase; Region: Transgly; pfam00912 544556002059 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 544556002060 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 544556002061 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 544556002062 active site 544556002063 HIGH motif; other site 544556002064 dimer interface [polypeptide binding]; other site 544556002065 KMSKS motif; other site 544556002066 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 544556002067 RNA binding surface [nucleotide binding]; other site 544556002068 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 544556002069 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 544556002070 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 544556002071 RNA binding surface [nucleotide binding]; other site 544556002072 GAF domain; Region: GAF_3; pfam13492 544556002073 GAF domain; Region: GAF_2; pfam13185 544556002074 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 544556002075 GAF domain; Region: GAF_3; pfam13492 544556002076 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 544556002077 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 544556002078 metal binding site [ion binding]; metal-binding site 544556002079 active site 544556002080 I-site; other site 544556002081 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 544556002082 GAF domain; Region: GAF_2; pfam13185 544556002083 histidinol-phosphatase; Reviewed; Region: PRK08123 544556002084 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 544556002085 active site 544556002086 dimer interface [polypeptide binding]; other site 544556002087 septation ring formation regulator EzrA; Provisional; Region: PRK04778 544556002088 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 544556002089 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 544556002090 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 544556002091 catalytic residue [active] 544556002092 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 544556002093 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 544556002094 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 544556002095 Ligand Binding Site [chemical binding]; other site 544556002096 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 544556002097 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 544556002098 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 544556002099 active site 544556002100 acyl-activating enzyme (AAE) consensus motif; other site 544556002101 putative CoA binding site [chemical binding]; other site 544556002102 AMP binding site [chemical binding]; other site 544556002103 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03501 544556002104 ATP-NAD kinase; Region: NAD_kinase; pfam01513 544556002105 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 544556002106 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 544556002107 tandem repeat interface [polypeptide binding]; other site 544556002108 oligomer interface [polypeptide binding]; other site 544556002109 active site residues [active] 544556002110 RDD family; Region: RDD; pfam06271 544556002111 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 544556002112 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 544556002113 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 544556002114 dimer interface [polypeptide binding]; other site 544556002115 catalytic triad [active] 544556002116 peroxidatic and resolving cysteines [active] 544556002117 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 544556002118 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 544556002119 S-adenosylmethionine binding site [chemical binding]; other site 544556002120 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 544556002121 propionate/acetate kinase; Provisional; Region: PRK12379 544556002122 SCP-2 sterol transfer family; Region: SCP2; pfam02036 544556002123 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 544556002124 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 544556002125 acyl-activating enzyme (AAE) consensus motif; other site 544556002126 putative AMP binding site [chemical binding]; other site 544556002127 putative active site [active] 544556002128 putative CoA binding site [chemical binding]; other site 544556002129 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 544556002130 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 544556002131 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 544556002132 active site 544556002133 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 544556002134 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 544556002135 active site 544556002136 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 544556002137 enoyl-CoA hydratase; Provisional; Region: PRK06688 544556002138 substrate binding site [chemical binding]; other site 544556002139 oxyanion hole (OAH) forming residues; other site 544556002140 trimer interface [polypeptide binding]; other site 544556002141 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 544556002142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 544556002143 NAD(P) binding site [chemical binding]; other site 544556002144 active site 544556002145 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 544556002146 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 544556002147 dimer interface [polypeptide binding]; other site 544556002148 active site 544556002149 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 544556002150 ABC1 family; Region: ABC1; cl17513 544556002151 Transmembrane proteins 14C; Region: Tmemb_14; cl02346 544556002152 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 544556002153 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 544556002154 NAD binding site [chemical binding]; other site 544556002155 catalytic Zn binding site [ion binding]; other site 544556002156 substrate binding site [chemical binding]; other site 544556002157 structural Zn binding site [ion binding]; other site 544556002158 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 544556002159 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 544556002160 NAD(P) binding site [chemical binding]; other site 544556002161 catalytic residues [active] 544556002162 Ribonucleotide Reductase R2-like protein, Mn/Fe-binding domain; Region: RNRR2_Rv0233_like; cd07911 544556002163 active site 544556002164 diiron metal binding site [ion binding]; other site 544556002165 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 544556002166 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 544556002167 DNA binding residues [nucleotide binding] 544556002168 dimerization interface [polypeptide binding]; other site 544556002169 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 544556002170 MPT binding site; other site 544556002171 trimer interface [polypeptide binding]; other site 544556002172 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 544556002173 Major Facilitator Superfamily; Region: MFS_1; pfam07690 544556002174 putative substrate translocation pore; other site 544556002175 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 544556002176 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 544556002177 hypothetical protein; Provisional; Region: PRK07206 544556002178 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 544556002179 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 544556002180 dimerization interface [polypeptide binding]; other site 544556002181 putative DNA binding site [nucleotide binding]; other site 544556002182 putative Zn2+ binding site [ion binding]; other site 544556002183 acetyl-CoA synthetase; Provisional; Region: PRK04319 544556002184 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 544556002185 active site 544556002186 acyl-activating enzyme (AAE) consensus motif; other site 544556002187 putative CoA binding site [chemical binding]; other site 544556002188 AMP binding site [chemical binding]; other site 544556002189 argininosuccinate synthase; Provisional; Region: PRK13820 544556002190 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 544556002191 ANP binding site [chemical binding]; other site 544556002192 Substrate Binding Site II [chemical binding]; other site 544556002193 Substrate Binding Site I [chemical binding]; other site 544556002194 argininosuccinate lyase; Provisional; Region: PRK00855 544556002195 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 544556002196 active sites [active] 544556002197 tetramer interface [polypeptide binding]; other site 544556002198 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 544556002199 Ligand Binding Site [chemical binding]; other site 544556002200 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 544556002201 classical (c) SDRs; Region: SDR_c; cd05233 544556002202 NAD(P) binding site [chemical binding]; other site 544556002203 active site 544556002204 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 544556002205 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 544556002206 hexamer interface [polypeptide binding]; other site 544556002207 ligand binding site [chemical binding]; other site 544556002208 putative active site [active] 544556002209 NAD(P) binding site [chemical binding]; other site 544556002210 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 544556002211 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 544556002212 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 544556002213 active site 544556002214 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 544556002215 metal-dependent hydrolase; Provisional; Region: PRK00685 544556002216 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 544556002217 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 544556002218 DNA-binding site [nucleotide binding]; DNA binding site 544556002219 DRTGG domain; Region: DRTGG; pfam07085 544556002220 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 544556002221 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 544556002222 active site 2 [active] 544556002223 active site 1 [active] 544556002224 YtpI-like protein; Region: YtpI; pfam14007 544556002225 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 544556002226 DHH family; Region: DHH; pfam01368 544556002227 DHHA1 domain; Region: DHHA1; pfam02272 544556002228 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 544556002229 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06920 544556002230 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 544556002231 active site 544556002232 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 544556002233 generic binding surface II; other site 544556002234 generic binding surface I; other site 544556002235 Transcriptional regulators [Transcription]; Region: FadR; COG2186 544556002236 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 544556002237 DNA-binding site [nucleotide binding]; DNA binding site 544556002238 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 544556002239 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 544556002240 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 544556002241 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 544556002242 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 544556002243 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 544556002244 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 544556002245 active site 544556002246 ADP/pyrophosphate binding site [chemical binding]; other site 544556002247 dimerization interface [polypeptide binding]; other site 544556002248 allosteric effector site; other site 544556002249 fructose-1,6-bisphosphate binding site; other site 544556002250 pyruvate kinase; Provisional; Region: PRK06354 544556002251 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 544556002252 domain interfaces; other site 544556002253 active site 544556002254 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 544556002255 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 544556002256 Protein of unknown function (DUF441); Region: DUF441; pfam04284 544556002257 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 544556002258 dimer interface [polypeptide binding]; other site 544556002259 Citrate synthase; Region: Citrate_synt; pfam00285 544556002260 active site 544556002261 citrylCoA binding site [chemical binding]; other site 544556002262 oxalacetate/citrate binding site [chemical binding]; other site 544556002263 coenzyme A binding site [chemical binding]; other site 544556002264 catalytic triad [active] 544556002265 isocitrate dehydrogenase; Reviewed; Region: PRK07006 544556002266 isocitrate dehydrogenase; Validated; Region: PRK07362 544556002267 malate dehydrogenase; Reviewed; Region: PRK06223 544556002268 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 544556002269 NAD(P) binding site [chemical binding]; other site 544556002270 dimer interface [polypeptide binding]; other site 544556002271 tetramer (dimer of dimers) interface [polypeptide binding]; other site 544556002272 substrate binding site [chemical binding]; other site 544556002273 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 544556002274 active site 2 [active] 544556002275 active site 1 [active] 544556002276 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 544556002277 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 544556002278 active site 544556002279 phosphorylation site [posttranslational modification] 544556002280 intermolecular recognition site; other site 544556002281 dimerization interface [polypeptide binding]; other site 544556002282 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 544556002283 DNA binding site [nucleotide binding] 544556002284 HAMP domain; Region: HAMP; pfam00672 544556002285 dimerization interface [polypeptide binding]; other site 544556002286 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 544556002287 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 544556002288 putative active site [active] 544556002289 heme pocket [chemical binding]; other site 544556002290 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 544556002291 dimer interface [polypeptide binding]; other site 544556002292 phosphorylation site [posttranslational modification] 544556002293 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 544556002294 ATP binding site [chemical binding]; other site 544556002295 Mg2+ binding site [ion binding]; other site 544556002296 G-X-G motif; other site 544556002297 DNA polymerase I; Provisional; Region: PRK05755 544556002298 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 544556002299 active site 544556002300 metal binding site 1 [ion binding]; metal-binding site 544556002301 putative 5' ssDNA interaction site; other site 544556002302 metal binding site 3; metal-binding site 544556002303 metal binding site 2 [ion binding]; metal-binding site 544556002304 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 544556002305 putative DNA binding site [nucleotide binding]; other site 544556002306 putative metal binding site [ion binding]; other site 544556002307 DEDDy 3'-5' exonuclease domain of family-A DNA polymerases; Region: DNA_polA_exo; cd06128 544556002308 active site 544556002309 catalytic site [active] 544556002310 substrate binding site [chemical binding]; other site 544556002311 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 544556002312 active site 544556002313 DNA binding site [nucleotide binding] 544556002314 catalytic site [active] 544556002315 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 544556002316 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 544556002317 DNA binding site [nucleotide binding] 544556002318 catalytic residue [active] 544556002319 H2TH interface [polypeptide binding]; other site 544556002320 putative catalytic residues [active] 544556002321 turnover-facilitating residue; other site 544556002322 intercalation triad [nucleotide binding]; other site 544556002323 8OG recognition residue [nucleotide binding]; other site 544556002324 putative reading head residues; other site 544556002325 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 544556002326 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 544556002327 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 544556002328 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 544556002329 CoA-binding site [chemical binding]; other site 544556002330 ATP-binding [chemical binding]; other site 544556002331 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 544556002332 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 544556002333 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 544556002334 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 544556002335 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 544556002336 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 544556002337 ATP cone domain; Region: ATP-cone; pfam03477 544556002338 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 544556002339 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 544556002340 primosomal protein DnaI; Reviewed; Region: PRK08939 544556002341 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 544556002342 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 544556002343 Walker A motif; other site 544556002344 ATP binding site [chemical binding]; other site 544556002345 Walker B motif; other site 544556002346 putative sporulation protein YtxC; Region: spo_ytxC; TIGR02834 544556002347 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 544556002348 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 544556002349 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 544556002350 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 544556002351 active site 544556002352 dimer interface [polypeptide binding]; other site 544556002353 motif 1; other site 544556002354 motif 2; other site 544556002355 motif 3; other site 544556002356 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 544556002357 anticodon binding site; other site 544556002358 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 544556002359 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 544556002360 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 544556002361 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 544556002362 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 544556002363 23S rRNA binding site [nucleotide binding]; other site 544556002364 L21 binding site [polypeptide binding]; other site 544556002365 L13 binding site [polypeptide binding]; other site 544556002366 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 544556002367 dUTPase; Region: dUTPase_2; pfam08761 544556002368 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 544556002369 active site 544556002370 homodimer interface [polypeptide binding]; other site 544556002371 metal binding site [ion binding]; metal-binding site 544556002372 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 544556002373 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 544556002374 oligomer interface [polypeptide binding]; other site 544556002375 active site 544556002376 metal binding site [ion binding]; metal-binding site 544556002377 small acid-soluble spore protein SspI; Provisional; Region: PRK02955 544556002378 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 544556002379 active site 544556002380 NTP binding site [chemical binding]; other site 544556002381 metal binding triad [ion binding]; metal-binding site 544556002382 antibiotic binding site [chemical binding]; other site 544556002383 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 544556002384 methionine sulfoxide reductase A; Provisional; Region: PRK14054 544556002385 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 544556002386 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 544556002387 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 544556002388 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 544556002389 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 544556002390 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 544556002391 dimer interface [polypeptide binding]; other site 544556002392 motif 1; other site 544556002393 active site 544556002394 motif 2; other site 544556002395 motif 3; other site 544556002396 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 544556002397 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 544556002398 putative tRNA-binding site [nucleotide binding]; other site 544556002399 B3/4 domain; Region: B3_4; pfam03483 544556002400 tRNA synthetase B5 domain; Region: B5; smart00874 544556002401 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 544556002402 dimer interface [polypeptide binding]; other site 544556002403 motif 1; other site 544556002404 motif 3; other site 544556002405 motif 2; other site 544556002406 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 544556002407 DNA binding domain, excisionase family; Region: excise; TIGR01764 544556002408 PBP superfamily domain; Region: PBP_like; pfam12727 544556002409 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 544556002410 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 544556002411 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 544556002412 camphor resistance protein CrcB; Provisional; Region: PRK14205 544556002413 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; cl15837 544556002414 Alkaline phosphatase homologues; Region: alkPPc; smart00098 544556002415 active site 544556002416 dimer interface [polypeptide binding]; other site 544556002417 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 544556002418 MarR family; Region: MarR_2; pfam12802 544556002419 MMPL family; Region: MMPL; pfam03176 544556002420 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 544556002421 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 544556002422 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 544556002423 potential catalytic triad [active] 544556002424 conserved cys residue [active] 544556002425 ribonuclease HIII; Provisional; Region: PRK00996 544556002426 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 544556002427 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 544556002428 RNA/DNA hybrid binding site [nucleotide binding]; other site 544556002429 active site 544556002430 cell division protein ZapA; Provisional; Region: PRK14126 544556002431 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 544556002432 Colicin V production protein; Region: Colicin_V; pfam02674 544556002433 hypothetical protein; Provisional; Region: PRK08609 544556002434 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 544556002435 active site 544556002436 primer binding site [nucleotide binding]; other site 544556002437 NTP binding site [chemical binding]; other site 544556002438 metal binding triad [ion binding]; metal-binding site 544556002439 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 544556002440 active site 544556002441 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 544556002442 MutS domain III; Region: MutS_III; pfam05192 544556002443 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 544556002444 Walker A/P-loop; other site 544556002445 ATP binding site [chemical binding]; other site 544556002446 Q-loop/lid; other site 544556002447 ABC transporter signature motif; other site 544556002448 Walker B; other site 544556002449 D-loop; other site 544556002450 H-loop/switch region; other site 544556002451 Smr domain; Region: Smr; pfam01713 544556002452 Predicted membrane protein [Function unknown]; Region: COG3766 544556002453 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 544556002454 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 544556002455 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 544556002456 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 544556002457 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 544556002458 acyl-activating enzyme (AAE) consensus motif; other site 544556002459 putative AMP binding site [chemical binding]; other site 544556002460 putative active site [active] 544556002461 putative CoA binding site [chemical binding]; other site 544556002462 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 544556002463 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 544556002464 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 544556002465 enoyl-CoA hydratase; Provisional; Region: PRK07658 544556002466 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 544556002467 substrate binding site [chemical binding]; other site 544556002468 oxyanion hole (OAH) forming residues; other site 544556002469 trimer interface [polypeptide binding]; other site 544556002470 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 544556002471 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 544556002472 Ligand binding site [chemical binding]; other site 544556002473 Electron transfer flavoprotein domain; Region: ETF; pfam01012 544556002474 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 544556002475 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 544556002476 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 544556002477 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 544556002478 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 544556002479 catalytic residues [active] 544556002480 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 544556002481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 544556002482 NAD(P) binding site [chemical binding]; other site 544556002483 active site 544556002484 Sulfatase; Region: Sulfatase; cl17466 544556002485 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 544556002486 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 544556002487 Ligand binding site; other site 544556002488 Putative Catalytic site; other site 544556002489 DXD motif; other site 544556002490 Iron permease FTR1 family; Region: FTR1; cl00475 544556002491 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 544556002492 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 544556002493 GIY-YIG motif/motif A; other site 544556002494 active site 544556002495 catalytic site [active] 544556002496 putative DNA binding site [nucleotide binding]; other site 544556002497 metal binding site [ion binding]; metal-binding site 544556002498 UvrB/uvrC motif; Region: UVR; pfam02151 544556002499 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 544556002500 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 544556002501 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 544556002502 putative Iron-sulfur protein interface [polypeptide binding]; other site 544556002503 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 544556002504 proximal heme binding site [chemical binding]; other site 544556002505 distal heme binding site [chemical binding]; other site 544556002506 putative dimer interface [polypeptide binding]; other site 544556002507 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 544556002508 L-aspartate oxidase; Provisional; Region: PRK06175 544556002509 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 544556002510 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 544556002511 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 544556002512 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 544556002513 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 544556002514 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 544556002515 DNA binding residues [nucleotide binding] 544556002516 dimerization interface [polypeptide binding]; other site 544556002517 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 544556002518 MarR family; Region: MarR; pfam01047 544556002519 glutamate racemase; Provisional; Region: PRK00865 544556002520 Spore germination protein [General function prediction only]; Region: COG5401 544556002521 Sporulation and spore germination; Region: Germane; pfam10646 544556002522 Sporulation and spore germination; Region: Germane; pfam10646 544556002523 ribonuclease PH; Reviewed; Region: rph; PRK00173 544556002524 Ribonuclease PH; Region: RNase_PH_bact; cd11362 544556002525 hexamer interface [polypeptide binding]; other site 544556002526 active site 544556002527 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 544556002528 active site 544556002529 dimerization interface [polypeptide binding]; other site 544556002530 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 544556002531 active site 544556002532 metal binding site [ion binding]; metal-binding site 544556002533 homotetramer interface [polypeptide binding]; other site 544556002534 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 544556002535 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 544556002536 homodimer interface [polypeptide binding]; other site 544556002537 substrate-cofactor binding pocket; other site 544556002538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556002539 catalytic residue [active] 544556002540 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 544556002541 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 544556002542 PYR/PP interface [polypeptide binding]; other site 544556002543 dimer interface [polypeptide binding]; other site 544556002544 TPP binding site [chemical binding]; other site 544556002545 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 544556002546 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 544556002547 TPP-binding site [chemical binding]; other site 544556002548 dimer interface [polypeptide binding]; other site 544556002549 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 544556002550 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 544556002551 putative valine binding site [chemical binding]; other site 544556002552 dimer interface [polypeptide binding]; other site 544556002553 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 544556002554 ketol-acid reductoisomerase; Provisional; Region: PRK05479 544556002555 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 544556002556 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 544556002557 2-isopropylmalate synthase; Validated; Region: PRK00915 544556002558 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 544556002559 active site 544556002560 catalytic residues [active] 544556002561 metal binding site [ion binding]; metal-binding site 544556002562 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 544556002563 tartrate dehydrogenase; Region: TTC; TIGR02089 544556002564 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 544556002565 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 544556002566 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 544556002567 substrate binding site [chemical binding]; other site 544556002568 ligand binding site [chemical binding]; other site 544556002569 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 544556002570 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 544556002571 substrate binding site [chemical binding]; other site 544556002572 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 544556002573 binding surface 544556002574 Tetratricopeptide repeat; Region: TPR_16; pfam13432 544556002575 TPR motif; other site 544556002576 trigger factor; Provisional; Region: tig; PRK01490 544556002577 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 544556002578 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 544556002579 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 544556002580 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 544556002581 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 544556002582 Walker A motif; other site 544556002583 ATP binding site [chemical binding]; other site 544556002584 Walker B motif; other site 544556002585 arginine finger; other site 544556002586 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 544556002587 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 544556002588 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 544556002589 Walker A motif; other site 544556002590 ATP binding site [chemical binding]; other site 544556002591 Walker B motif; other site 544556002592 arginine finger; other site 544556002593 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 544556002594 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 544556002595 Found in ATP-dependent protease La (LON); Region: LON; smart00464 544556002596 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 544556002597 Walker A motif; other site 544556002598 ATP binding site [chemical binding]; other site 544556002599 Walker B motif; other site 544556002600 arginine finger; other site 544556002601 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 544556002602 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 544556002603 G1 box; other site 544556002604 GTP/Mg2+ binding site [chemical binding]; other site 544556002605 Switch I region; other site 544556002606 G2 box; other site 544556002607 G3 box; other site 544556002608 Switch II region; other site 544556002609 G4 box; other site 544556002610 G5 box; other site 544556002611 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 544556002612 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 544556002613 tRNA; other site 544556002614 putative tRNA binding site [nucleotide binding]; other site 544556002615 putative NADP binding site [chemical binding]; other site 544556002616 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 544556002617 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 544556002618 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 544556002619 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 544556002620 domain interfaces; other site 544556002621 active site 544556002622 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 544556002623 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 544556002624 active site 544556002625 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 544556002626 dimer interface [polypeptide binding]; other site 544556002627 active site 544556002628 Schiff base residues; other site 544556002629 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 544556002630 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 544556002631 inhibitor-cofactor binding pocket; inhibition site 544556002632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556002633 catalytic residue [active] 544556002634 stage VI sporulation protein D; Region: spore_VI_D; TIGR02907 544556002635 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556002636 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 544556002637 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 544556002638 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 544556002639 active site 544556002640 HIGH motif; other site 544556002641 nucleotide binding site [chemical binding]; other site 544556002642 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 544556002643 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 544556002644 active site 544556002645 KMSKS motif; other site 544556002646 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 544556002647 tRNA binding surface [nucleotide binding]; other site 544556002648 anticodon binding site; other site 544556002649 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 544556002650 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 544556002651 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 544556002652 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 544556002653 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 544556002654 metal ion-dependent adhesion site (MIDAS); other site 544556002655 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 544556002656 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 544556002657 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 544556002658 VanW like protein; Region: VanW; pfam04294 544556002659 G5 domain; Region: G5; pfam07501 544556002660 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 544556002661 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 544556002662 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 544556002663 Walker A motif; other site 544556002664 ATP binding site [chemical binding]; other site 544556002665 Walker B motif; other site 544556002666 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 544556002667 Mitochondrial ribosomal death-associated protein 3; Region: DAP3; pfam10236 544556002668 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 544556002669 Walker A motif; other site 544556002670 ATP binding site [chemical binding]; other site 544556002671 Walker B motif; other site 544556002672 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 544556002673 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 544556002674 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 544556002675 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 544556002676 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 544556002677 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 544556002678 Competence protein A; Region: Competence_A; pfam11104 544556002679 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 544556002680 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 544556002681 Maf-like protein; Region: Maf; pfam02545 544556002682 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 544556002683 active site 544556002684 dimer interface [polypeptide binding]; other site 544556002685 hypothetical protein; Reviewed; Region: PRK00024 544556002686 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 544556002687 helix-hairpin-helix signature motif; other site 544556002688 active site 544556002689 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 544556002690 MPN+ (JAMM) motif; other site 544556002691 Zinc-binding site [ion binding]; other site 544556002692 rod shape-determining protein MreB; Provisional; Region: PRK13927 544556002693 MreB and similar proteins; Region: MreB_like; cd10225 544556002694 nucleotide binding site [chemical binding]; other site 544556002695 Mg binding site [ion binding]; other site 544556002696 putative protofilament interaction site [polypeptide binding]; other site 544556002697 RodZ interaction site [polypeptide binding]; other site 544556002698 rod shape-determining protein MreC; Provisional; Region: PRK13922 544556002699 rod shape-determining protein MreC; Region: MreC; pfam04085 544556002700 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 544556002701 septum formation inhibitor; Reviewed; Region: minC; PRK00513 544556002702 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 544556002703 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 544556002704 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 544556002705 Switch I; other site 544556002706 Switch II; other site 544556002707 Peptidase family M23; Region: Peptidase_M23; pfam01551 544556002708 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 544556002709 Peptidase family M50; Region: Peptidase_M50; pfam02163 544556002710 active site 544556002711 putative substrate binding region [chemical binding]; other site 544556002712 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 544556002713 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 544556002714 hypothetical protein; Provisional; Region: PRK14553 544556002715 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 544556002716 GTPase CgtA; Reviewed; Region: obgE; PRK12297 544556002717 GTP1/OBG; Region: GTP1_OBG; pfam01018 544556002718 Obg GTPase; Region: Obg; cd01898 544556002719 G1 box; other site 544556002720 GTP/Mg2+ binding site [chemical binding]; other site 544556002721 Switch I region; other site 544556002722 G2 box; other site 544556002723 G3 box; other site 544556002724 Switch II region; other site 544556002725 G4 box; other site 544556002726 G5 box; other site 544556002727 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 544556002728 hypothetical protein; Provisional; Region: PRK04435 544556002729 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 544556002730 prephenate dehydratase; Provisional; Region: PRK11898 544556002731 Prephenate dehydratase; Region: PDT; pfam00800 544556002732 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 544556002733 putative L-Phe binding site [chemical binding]; other site 544556002734 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 544556002735 HTH domain; Region: HTH_11; pfam08279 544556002736 3H domain; Region: 3H; pfam02829 544556002737 cysteine desulfurase; Provisional; Region: PRK02948 544556002738 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 544556002739 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 544556002740 catalytic residue [active] 544556002741 L-aspartate oxidase; Provisional; Region: PRK08071 544556002742 L-aspartate oxidase; Provisional; Region: PRK06175 544556002743 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 544556002744 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK08072 544556002745 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 544556002746 dimerization interface [polypeptide binding]; other site 544556002747 active site 544556002748 quinolinate synthetase; Provisional; Region: PRK09375 544556002749 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 544556002750 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556002751 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 544556002752 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 544556002753 NAD synthetase; Provisional; Region: PRK13980 544556002754 homodimer interface [polypeptide binding]; other site 544556002755 NAD binding pocket [chemical binding]; other site 544556002756 ATP binding pocket [chemical binding]; other site 544556002757 Mg binding site [ion binding]; other site 544556002758 active-site loop [active] 544556002759 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 544556002760 hypothetical protein; Validated; Region: PRK00110 544556002761 Bypass of Forespore C, N terminal; Region: BOFC_N; pfam08977 544556002762 BofC C-terminal domain; Region: BofC_C; pfam08955 544556002763 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 544556002764 RuvA N terminal domain; Region: RuvA_N; pfam01330 544556002765 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 544556002766 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 544556002767 Walker A motif; other site 544556002768 ATP binding site [chemical binding]; other site 544556002769 Walker B motif; other site 544556002770 arginine finger; other site 544556002771 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 544556002772 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 544556002773 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 544556002774 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 544556002775 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 544556002776 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 544556002777 Preprotein translocase subunit; Region: YajC; pfam02699 544556002778 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 544556002779 stage V sporulation protein B; Region: spore_V_B; TIGR02900 544556002780 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 544556002781 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 544556002782 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 544556002783 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 544556002784 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 544556002785 Protein export membrane protein; Region: SecD_SecF; pfam02355 544556002786 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 544556002787 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 544556002788 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 544556002789 DHH family; Region: DHH; pfam01368 544556002790 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 544556002791 DHHA1 domain; Region: DHHA1; pfam02272 544556002792 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; pfam10141 544556002793 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 544556002794 active site 544556002795 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 544556002796 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 544556002797 Zn2+ binding site [ion binding]; other site 544556002798 Mg2+ binding site [ion binding]; other site 544556002799 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 544556002800 synthetase active site [active] 544556002801 NTP binding site [chemical binding]; other site 544556002802 metal binding site [ion binding]; metal-binding site 544556002803 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 544556002804 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 544556002805 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 544556002806 putative active site [active] 544556002807 dimerization interface [polypeptide binding]; other site 544556002808 putative tRNAtyr binding site [nucleotide binding]; other site 544556002809 peroxiredoxin; Region: AhpC; TIGR03137 544556002810 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 544556002811 dimer interface [polypeptide binding]; other site 544556002812 decamer (pentamer of dimers) interface [polypeptide binding]; other site 544556002813 catalytic triad [active] 544556002814 peroxidatic and resolving cysteines [active] 544556002815 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 544556002816 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 544556002817 catalytic residue [active] 544556002818 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 544556002819 catalytic residues [active] 544556002820 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 544556002821 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 544556002822 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 544556002823 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 544556002824 dimer interface [polypeptide binding]; other site 544556002825 motif 1; other site 544556002826 active site 544556002827 motif 2; other site 544556002828 motif 3; other site 544556002829 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 544556002830 anticodon binding site; other site 544556002831 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 544556002832 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 544556002833 dimer interface [polypeptide binding]; other site 544556002834 anticodon binding site; other site 544556002835 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 544556002836 homodimer interface [polypeptide binding]; other site 544556002837 motif 1; other site 544556002838 active site 544556002839 motif 2; other site 544556002840 GAD domain; Region: GAD; pfam02938 544556002841 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 544556002842 motif 3; other site 544556002843 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 544556002844 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 544556002845 putative ATP binding site [chemical binding]; other site 544556002846 putative substrate interface [chemical binding]; other site 544556002847 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 544556002848 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 544556002849 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 544556002850 Protein export membrane protein; Region: SecD_SecF; cl14618 544556002851 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 544556002852 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 544556002853 recombination factor protein RarA; Reviewed; Region: PRK13342 544556002854 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 544556002855 Walker A motif; other site 544556002856 ATP binding site [chemical binding]; other site 544556002857 Walker B motif; other site 544556002858 arginine finger; other site 544556002859 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 544556002860 Predicted transcriptional regulator [Transcription]; Region: COG1959 544556002861 Transcriptional regulator; Region: Rrf2; pfam02082 544556002862 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 544556002863 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 544556002864 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 544556002865 catalytic residue [active] 544556002866 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 544556002867 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 544556002868 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 544556002869 binding surface 544556002870 TPR repeat; Region: TPR_11; pfam13414 544556002871 TPR motif; other site 544556002872 TPR repeat; Region: TPR_11; pfam13414 544556002873 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 544556002874 binding surface 544556002875 TPR motif; other site 544556002876 TPR repeat; Region: TPR_11; pfam13414 544556002877 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 544556002878 AAA domain; Region: AAA_30; pfam13604 544556002879 Family description; Region: UvrD_C_2; pfam13538 544556002880 PRC-barrel domain; Region: PRC; pfam05239 544556002881 PRC-barrel domain; Region: PRC; pfam05239 544556002882 Protein of unknown function (DUF3918); Region: DUF3918; pfam13056 544556002883 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 544556002884 Domain of unknown function DUF20; Region: UPF0118; pfam01594 544556002885 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 544556002886 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 544556002887 motif 1; other site 544556002888 active site 544556002889 motif 2; other site 544556002890 motif 3; other site 544556002891 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 544556002892 DHHA1 domain; Region: DHHA1; pfam02272 544556002893 hypothetical protein; Provisional; Region: PRK05473 544556002894 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 544556002895 hypothetical protein; Provisional; Region: PRK13678 544556002896 YceG-like family; Region: YceG; pfam02618 544556002897 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 544556002898 dimerization interface [polypeptide binding]; other site 544556002899 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 544556002900 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 544556002901 S-adenosylmethionine binding site [chemical binding]; other site 544556002902 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 544556002903 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 544556002904 Peptidase family U32; Region: Peptidase_U32; pfam01136 544556002905 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 544556002906 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 544556002907 Peptidase family U32; Region: Peptidase_U32; pfam01136 544556002908 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 544556002909 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 544556002910 Sugar specificity; other site 544556002911 Pyrimidine base specificity; other site 544556002912 ATP-binding site [chemical binding]; other site 544556002913 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 544556002914 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 544556002915 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 544556002916 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 544556002917 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 544556002918 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 544556002919 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 544556002920 Protein of unknown function (DUF2536); Region: DUF2536; pfam10750 544556002921 Methyltransferase domain; Region: Methyltransf_23; pfam13489 544556002922 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 544556002923 S-adenosylmethionine binding site [chemical binding]; other site 544556002924 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 544556002925 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 544556002926 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 544556002927 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 544556002928 dimer interface [polypeptide binding]; other site 544556002929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556002930 catalytic residue [active] 544556002931 cystathionine beta-lyase; Provisional; Region: PRK07671 544556002932 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 544556002933 homodimer interface [polypeptide binding]; other site 544556002934 substrate-cofactor binding pocket; other site 544556002935 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556002936 catalytic residue [active] 544556002937 YrhC-like protein; Region: YrhC; pfam14143 544556002938 sporulation sigma factor SigK; Reviewed; Region: PRK05803 544556002939 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 544556002940 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 544556002941 DNA binding residues [nucleotide binding] 544556002942 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 544556002943 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 544556002944 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 544556002945 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 544556002946 sporulation integral membrane protein YtvI; Region: spore_ytvI; TIGR02872 544556002947 Domain of unknown function DUF20; Region: UPF0118; pfam01594 544556002948 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 544556002949 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 544556002950 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 544556002951 ligand binding site [chemical binding]; other site 544556002952 flagellar motor protein MotA; Validated; Region: PRK08124 544556002953 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 544556002954 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 544556002955 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 544556002956 phosphatidylserine decarboxylase; Provisional; Region: PRK03140 544556002957 Sporulation inhibitor A; Region: Sda; pfam08970 544556002958 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 544556002959 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 544556002960 active site 544556002961 motif I; other site 544556002962 motif II; other site 544556002963 GTPase YqeH; Provisional; Region: PRK13796 544556002964 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 544556002965 GTP/Mg2+ binding site [chemical binding]; other site 544556002966 G4 box; other site 544556002967 G5 box; other site 544556002968 G1 box; other site 544556002969 Switch I region; other site 544556002970 G2 box; other site 544556002971 G3 box; other site 544556002972 Switch II region; other site 544556002973 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 544556002974 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 544556002975 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 544556002976 shikimate binding site; other site 544556002977 NAD(P) binding site [chemical binding]; other site 544556002978 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 544556002979 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 544556002980 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 544556002981 active site 544556002982 (T/H)XGH motif; other site 544556002983 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 544556002984 Zn2+ binding site [ion binding]; other site 544556002985 Mg2+ binding site [ion binding]; other site 544556002986 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 544556002987 Methyltransferase domain; Region: Methyltransf_23; pfam13489 544556002988 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 544556002989 S-adenosylmethionine binding site [chemical binding]; other site 544556002990 late competence protein ComER; Validated; Region: PRK07680 544556002991 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 544556002992 SLBB domain; Region: SLBB; pfam10531 544556002993 comEA protein; Region: comE; TIGR01259 544556002994 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 544556002995 catalytic motif [active] 544556002996 Zn binding site [ion binding]; other site 544556002997 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 544556002998 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 544556002999 Competence protein; Region: Competence; pfam03772 544556003000 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 544556003001 YqzM-like protein; Region: YqzM; pfam14141 544556003002 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 544556003003 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 544556003004 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 544556003005 germination protease; Provisional; Region: PRK02858 544556003006 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 544556003007 stage II sporulation protein P; Region: spore_II_P; TIGR02867 544556003008 Protein of unknown function (DUF3679); Region: DUF3679; pfam12438 544556003009 GTP-binding protein LepA; Provisional; Region: PRK05433 544556003010 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 544556003011 G1 box; other site 544556003012 putative GEF interaction site [polypeptide binding]; other site 544556003013 GTP/Mg2+ binding site [chemical binding]; other site 544556003014 Switch I region; other site 544556003015 G2 box; other site 544556003016 G3 box; other site 544556003017 Switch II region; other site 544556003018 G4 box; other site 544556003019 G5 box; other site 544556003020 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 544556003021 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 544556003022 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 544556003023 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 544556003024 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 544556003025 FeS/SAM binding site; other site 544556003026 HemN C-terminal domain; Region: HemN_C; pfam06969 544556003027 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 544556003028 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 544556003029 heat shock protein GrpE; Provisional; Region: PRK14140 544556003030 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 544556003031 dimer interface [polypeptide binding]; other site 544556003032 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 544556003033 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 544556003034 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 544556003035 nucleotide binding site [chemical binding]; other site 544556003036 NEF interaction site [polypeptide binding]; other site 544556003037 SBD interface [polypeptide binding]; other site 544556003038 chaperone protein DnaJ; Provisional; Region: PRK14280 544556003039 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 544556003040 HSP70 interaction site [polypeptide binding]; other site 544556003041 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 544556003042 substrate binding site [polypeptide binding]; other site 544556003043 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 544556003044 Zn binding sites [ion binding]; other site 544556003045 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 544556003046 dimer interface [polypeptide binding]; other site 544556003047 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 544556003048 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 544556003049 S-adenosylmethionine binding site [chemical binding]; other site 544556003050 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 544556003051 RNA methyltransferase, RsmE family; Region: TIGR00046 544556003052 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 544556003053 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 544556003054 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 544556003055 FeS/SAM binding site; other site 544556003056 TRAM domain; Region: TRAM; pfam01938 544556003057 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 544556003058 intersubunit interface [polypeptide binding]; other site 544556003059 active site 544556003060 catalytic residue [active] 544556003061 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 544556003062 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 544556003063 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 544556003064 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 544556003065 Yqey-like protein; Region: YqeY; pfam09424 544556003066 sporulation protein YqfC; Region: spore_yqfC; TIGR02856 544556003067 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 544556003068 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 544556003069 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 544556003070 PhoH-like protein; Region: PhoH; pfam02562 544556003071 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 544556003072 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 544556003073 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 544556003074 Zn2+ binding site [ion binding]; other site 544556003075 Mg2+ binding site [ion binding]; other site 544556003076 metal-binding heat shock protein; Provisional; Region: PRK00016 544556003077 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 544556003078 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 544556003079 active site 544556003080 catalytic motif [active] 544556003081 Zn binding site [ion binding]; other site 544556003082 GTPase Era; Reviewed; Region: era; PRK00089 544556003083 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 544556003084 G1 box; other site 544556003085 GTP/Mg2+ binding site [chemical binding]; other site 544556003086 Switch I region; other site 544556003087 G2 box; other site 544556003088 Switch II region; other site 544556003089 G3 box; other site 544556003090 G4 box; other site 544556003091 G5 box; other site 544556003092 KH domain; Region: KH_2; pfam07650 544556003093 YqzL-like protein; Region: YqzL; pfam14006 544556003094 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 544556003095 Recombination protein O N terminal; Region: RecO_N; pfam11967 544556003096 Recombination protein O C terminal; Region: RecO_C; pfam02565 544556003097 HTH domain; Region: HTH_11; pfam08279 544556003098 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 544556003099 FOG: CBS domain [General function prediction only]; Region: COG0517 544556003100 PEP synthetase regulatory protein; Provisional; Region: PRK05339 544556003101 DNA primase; Validated; Region: dnaG; PRK05667 544556003102 CHC2 zinc finger; Region: zf-CHC2; pfam01807 544556003103 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 544556003104 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 544556003105 active site 544556003106 metal binding site [ion binding]; metal-binding site 544556003107 interdomain interaction site; other site 544556003108 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 544556003109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556003110 Transposase; Region: DEDD_Tnp_IS110; pfam01548 544556003111 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 544556003112 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556003113 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 544556003114 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 544556003115 salt bridge; other site 544556003116 non-specific DNA binding site [nucleotide binding]; other site 544556003117 sequence-specific DNA binding site [nucleotide binding]; other site 544556003118 Protein of unknown function (DUF817); Region: DUF817; pfam05675 544556003119 DinB superfamily; Region: DinB_2; pfam12867 544556003120 metal-dependent hydrolase; Provisional; Region: PRK13291 544556003121 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 544556003122 active site 544556003123 PAS fold; Region: PAS; pfam00989 544556003124 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 544556003125 putative active site [active] 544556003126 heme pocket [chemical binding]; other site 544556003127 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 544556003128 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 544556003129 Walker A motif; other site 544556003130 ATP binding site [chemical binding]; other site 544556003131 Walker B motif; other site 544556003132 arginine finger; other site 544556003133 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 544556003134 S-methylmethionine transporter; Provisional; Region: PRK11387 544556003135 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 544556003136 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 544556003137 Glutamate binding site [chemical binding]; other site 544556003138 homodimer interface [polypeptide binding]; other site 544556003139 NAD binding site [chemical binding]; other site 544556003140 catalytic residues [active] 544556003141 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 544556003142 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 544556003143 inhibitor-cofactor binding pocket; inhibition site 544556003144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556003145 catalytic residue [active] 544556003146 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 544556003147 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 544556003148 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 544556003149 NAD(P) binding site [chemical binding]; other site 544556003150 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 544556003151 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 544556003152 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 544556003153 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 544556003154 ABC-ATPase subunit interface; other site 544556003155 dimer interface [polypeptide binding]; other site 544556003156 putative PBP binding regions; other site 544556003157 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 544556003158 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 544556003159 ABC-ATPase subunit interface; other site 544556003160 dimer interface [polypeptide binding]; other site 544556003161 putative PBP binding regions; other site 544556003162 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 544556003163 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 544556003164 putative ligand binding residues [chemical binding]; other site 544556003165 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 544556003166 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 544556003167 Walker A/P-loop; other site 544556003168 ATP binding site [chemical binding]; other site 544556003169 Q-loop/lid; other site 544556003170 ABC transporter signature motif; other site 544556003171 Walker B; other site 544556003172 D-loop; other site 544556003173 H-loop/switch region; other site 544556003174 FOG: CBS domain [General function prediction only]; Region: COG0517 544556003175 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 544556003176 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 544556003177 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 544556003178 putative active site [active] 544556003179 heme pocket [chemical binding]; other site 544556003180 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 544556003181 Walker A motif; other site 544556003182 ATP binding site [chemical binding]; other site 544556003183 Walker B motif; other site 544556003184 arginine finger; other site 544556003185 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 544556003186 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 544556003187 active site 544556003188 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 544556003189 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 544556003190 NAD(P) binding site [chemical binding]; other site 544556003191 catalytic residues [active] 544556003192 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 544556003193 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 544556003194 active site 544556003195 metal binding site [ion binding]; metal-binding site 544556003196 Predicted membrane protein [Function unknown]; Region: COG2259 544556003197 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 544556003198 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 544556003199 catalytic residues [active] 544556003200 DinB family; Region: DinB; cl17821 544556003201 DinB superfamily; Region: DinB_2; pfam12867 544556003202 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 544556003203 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 544556003204 active site 544556003205 phosphorylation site [posttranslational modification] 544556003206 intermolecular recognition site; other site 544556003207 dimerization interface [polypeptide binding]; other site 544556003208 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 544556003209 DNA binding residues [nucleotide binding] 544556003210 dimerization interface [polypeptide binding]; other site 544556003211 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 544556003212 Histidine kinase; Region: HisKA_3; pfam07730 544556003213 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 544556003214 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 544556003215 Walker A/P-loop; other site 544556003216 ATP binding site [chemical binding]; other site 544556003217 Q-loop/lid; other site 544556003218 ABC transporter signature motif; other site 544556003219 Walker B; other site 544556003220 D-loop; other site 544556003221 H-loop/switch region; other site 544556003222 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 544556003223 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 544556003224 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 544556003225 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 544556003226 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 544556003227 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 544556003228 active site 544556003229 metal binding site [ion binding]; metal-binding site 544556003230 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 544556003231 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 544556003232 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 544556003233 active site 544556003234 catalytic triad [active] 544556003235 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 544556003236 Sulfatase; Region: Sulfatase; pfam00884 544556003237 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 544556003238 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 544556003239 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 544556003240 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 544556003241 Domain of unknown function DUF; Region: DUF204; pfam02659 544556003242 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 544556003243 SpoOM protein; Region: Spo0M; pfam07070 544556003244 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 544556003245 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 544556003246 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 544556003247 nucleotide binding site [chemical binding]; other site 544556003248 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 544556003249 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 544556003250 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556003251 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 544556003252 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 544556003253 active site 544556003254 homodimer interface [polypeptide binding]; other site 544556003255 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 544556003256 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 544556003257 NodB motif; other site 544556003258 putative active site [active] 544556003259 putative catalytic site [active] 544556003260 putative Zn binding site [ion binding]; other site 544556003261 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 544556003262 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 544556003263 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 544556003264 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 544556003265 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 544556003266 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 544556003267 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 544556003268 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 544556003269 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 544556003270 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 544556003271 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 544556003272 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 544556003273 Esterase/lipase [General function prediction only]; Region: COG1647 544556003274 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 544556003275 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 544556003276 ATP binding site [chemical binding]; other site 544556003277 Mg++ binding site [ion binding]; other site 544556003278 motif III; other site 544556003279 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 544556003280 nucleotide binding region [chemical binding]; other site 544556003281 ATP-binding site [chemical binding]; other site 544556003282 Rhomboid family; Region: Rhomboid; pfam01694 544556003283 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 544556003284 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 544556003285 alanine racemase; Reviewed; Region: alr; PRK00053 544556003286 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 544556003287 active site 544556003288 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 544556003289 dimer interface [polypeptide binding]; other site 544556003290 substrate binding site [chemical binding]; other site 544556003291 catalytic residues [active] 544556003292 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 544556003293 PemK-like protein; Region: PemK; pfam02452 544556003294 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 544556003295 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 544556003296 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 544556003297 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 544556003298 RNA binding site [nucleotide binding]; other site 544556003299 SprT homologues; Region: SprT; cl01182 544556003300 hypothetical protein; Provisional; Region: PRK04351 544556003301 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 544556003302 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 544556003303 Glycoprotease family; Region: Peptidase_M22; pfam00814 544556003304 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 544556003305 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 544556003306 Coenzyme A binding pocket [chemical binding]; other site 544556003307 UGMP family protein; Validated; Region: PRK09604 544556003308 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 544556003309 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 544556003310 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 544556003311 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 544556003312 ABC transporter; Region: ABC_tran_2; pfam12848 544556003313 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 544556003314 ABC transporter; Region: ABC_tran_2; pfam12848 544556003315 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 544556003316 trimer interface [polypeptide binding]; other site 544556003317 dimer interface [polypeptide binding]; other site 544556003318 putative active site [active] 544556003319 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 544556003320 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 544556003321 CoA binding domain; Region: CoA_binding; pfam02629 544556003322 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 544556003323 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 544556003324 Domain of unknown function (DUF4305); Region: DUF4305; pfam14146 544556003325 CAAX protease self-immunity; Region: Abi; pfam02517 544556003326 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 544556003327 oligomerisation interface [polypeptide binding]; other site 544556003328 mobile loop; other site 544556003329 roof hairpin; other site 544556003330 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 544556003331 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 544556003332 ring oligomerisation interface [polypeptide binding]; other site 544556003333 ATP/Mg binding site [chemical binding]; other site 544556003334 stacking interactions; other site 544556003335 hinge regions; other site 544556003336 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556003337 Transposase; Region: DEDD_Tnp_IS110; pfam01548 544556003338 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 544556003339 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 544556003340 GMP synthase; Reviewed; Region: guaA; PRK00074 544556003341 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 544556003342 AMP/PPi binding site [chemical binding]; other site 544556003343 candidate oxyanion hole; other site 544556003344 catalytic triad [active] 544556003345 potential glutamine specificity residues [chemical binding]; other site 544556003346 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 544556003347 ATP Binding subdomain [chemical binding]; other site 544556003348 Ligand Binding sites [chemical binding]; other site 544556003349 Dimerization subdomain; other site 544556003350 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 544556003351 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 544556003352 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 544556003353 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 544556003354 Protein of unknown function DUF58; Region: DUF58; pfam01882 544556003355 MoxR-like ATPases [General function prediction only]; Region: COG0714 544556003356 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 544556003357 Walker A motif; other site 544556003358 ATP binding site [chemical binding]; other site 544556003359 Walker B motif; other site 544556003360 arginine finger; other site 544556003361 fumarate hydratase; Reviewed; Region: fumC; PRK00485 544556003362 Class II fumarases; Region: Fumarase_classII; cd01362 544556003363 active site 544556003364 tetramer interface [polypeptide binding]; other site 544556003365 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556003366 Transposase; Region: DEDD_Tnp_IS110; pfam01548 544556003367 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 544556003368 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556003369 Domain of unknown function (DUF4306); Region: DUF4306; pfam14154 544556003370 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 544556003371 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 544556003372 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 544556003373 putative dimer interface [polypeptide binding]; other site 544556003374 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 544556003375 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 544556003376 ATP-grasp domain; Region: ATP-grasp; pfam02222 544556003377 adenylosuccinate lyase; Provisional; Region: PRK07492 544556003378 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 544556003379 tetramer interface [polypeptide binding]; other site 544556003380 active site 544556003381 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 544556003382 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 544556003383 ATP binding site [chemical binding]; other site 544556003384 active site 544556003385 substrate binding site [chemical binding]; other site 544556003386 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 544556003387 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 544556003388 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 544556003389 putative active site [active] 544556003390 catalytic triad [active] 544556003391 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 544556003392 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 544556003393 dimerization interface [polypeptide binding]; other site 544556003394 ATP binding site [chemical binding]; other site 544556003395 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 544556003396 dimerization interface [polypeptide binding]; other site 544556003397 ATP binding site [chemical binding]; other site 544556003398 amidophosphoribosyltransferase; Provisional; Region: PRK07631 544556003399 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 544556003400 active site 544556003401 tetramer interface [polypeptide binding]; other site 544556003402 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 544556003403 active site 544556003404 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 544556003405 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 544556003406 dimerization interface [polypeptide binding]; other site 544556003407 putative ATP binding site [chemical binding]; other site 544556003408 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 544556003409 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 544556003410 active site 544556003411 substrate binding site [chemical binding]; other site 544556003412 cosubstrate binding site; other site 544556003413 catalytic site [active] 544556003414 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 544556003415 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 544556003416 purine monophosphate binding site [chemical binding]; other site 544556003417 dimer interface [polypeptide binding]; other site 544556003418 putative catalytic residues [active] 544556003419 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 544556003420 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 544556003421 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 544556003422 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 544556003423 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 544556003424 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 544556003425 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 544556003426 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 544556003427 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 544556003428 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 544556003429 active site 544556003430 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 544556003431 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 544556003432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4496 544556003433 PcrB family; Region: PcrB; pfam01884 544556003434 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 544556003435 substrate binding site [chemical binding]; other site 544556003436 putative active site [active] 544556003437 dimer interface [polypeptide binding]; other site 544556003438 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 544556003439 Part of AAA domain; Region: AAA_19; pfam13245 544556003440 AAA domain; Region: AAA_12; pfam13087 544556003441 Family description; Region: UvrD_C_2; pfam13538 544556003442 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 544556003443 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 544556003444 nucleotide binding pocket [chemical binding]; other site 544556003445 K-X-D-G motif; other site 544556003446 catalytic site [active] 544556003447 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 544556003448 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 544556003449 Helix-hairpin-helix motif; Region: HHH; pfam00633 544556003450 helix-hairpin-helix signature motif; other site 544556003451 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 544556003452 Dimer interface [polypeptide binding]; other site 544556003453 Protein involved in sex pheromone biosynthesis [General function prediction only]; Region: CamS; COG4851 544556003454 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 544556003455 putative dimer interface [polypeptide binding]; other site 544556003456 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 544556003457 putative dimer interface [polypeptide binding]; other site 544556003458 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 544556003459 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 544556003460 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 544556003461 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 544556003462 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 544556003463 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 544556003464 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 544556003465 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 544556003466 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 544556003467 GatB domain; Region: GatB_Yqey; pfam02637 544556003468 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08248 544556003469 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 544556003470 homodimer interface [polypeptide binding]; other site 544556003471 substrate-cofactor binding pocket; other site 544556003472 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556003473 catalytic residue [active] 544556003474 lantibiotic, gallidermin/nisin family; Region: lantibio_gallid; TIGR03731 544556003475 DDE superfamily endonuclease; Region: DDE_5; cl17874 544556003476 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556003477 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 544556003478 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 544556003479 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 544556003480 Walker A/P-loop; other site 544556003481 ATP binding site [chemical binding]; other site 544556003482 Q-loop/lid; other site 544556003483 ABC transporter signature motif; other site 544556003484 Walker B; other site 544556003485 D-loop; other site 544556003486 H-loop/switch region; other site 544556003487 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 544556003488 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 544556003489 active site 544556003490 phosphorylation site [posttranslational modification] 544556003491 intermolecular recognition site; other site 544556003492 dimerization interface [polypeptide binding]; other site 544556003493 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 544556003494 DNA binding site [nucleotide binding] 544556003495 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 544556003496 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; cl01054 544556003497 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 544556003498 dimer interface [polypeptide binding]; other site 544556003499 phosphorylation site [posttranslational modification] 544556003500 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 544556003501 ATP binding site [chemical binding]; other site 544556003502 Mg2+ binding site [ion binding]; other site 544556003503 G-X-G motif; other site 544556003504 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 544556003505 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 544556003506 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 544556003507 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 544556003508 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 544556003509 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 544556003510 Walker A/P-loop; other site 544556003511 ATP binding site [chemical binding]; other site 544556003512 Q-loop/lid; other site 544556003513 ABC transporter signature motif; other site 544556003514 Walker B; other site 544556003515 D-loop; other site 544556003516 H-loop/switch region; other site 544556003517 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 544556003518 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 544556003519 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 544556003520 dimer interface [polypeptide binding]; other site 544556003521 conserved gate region; other site 544556003522 putative PBP binding loops; other site 544556003523 ABC-ATPase subunit interface; other site 544556003524 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 544556003525 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 544556003526 Walker A/P-loop; other site 544556003527 ATP binding site [chemical binding]; other site 544556003528 Q-loop/lid; other site 544556003529 ABC transporter signature motif; other site 544556003530 Walker B; other site 544556003531 D-loop; other site 544556003532 H-loop/switch region; other site 544556003533 FOG: CBS domain [General function prediction only]; Region: COG0517 544556003534 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 544556003535 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 544556003536 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 544556003537 TIGR02677 family protein; Region: TIGR02677 544556003538 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 544556003539 TIGR02678 family protein; Region: TIGR02678 544556003540 TIGR02680 family protein; Region: TIGR02680 544556003541 P-loop containing region of AAA domain; Region: AAA_29; cl17516 544556003542 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 544556003543 TIGR02679 family protein; Region: TIGR02679 544556003544 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 544556003545 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 544556003546 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 544556003547 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 544556003548 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 544556003549 Family of unknown function (DUF694); Region: DUF694; pfam05107 544556003550 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 544556003551 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 544556003552 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 544556003553 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 544556003554 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 544556003555 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 544556003556 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 544556003557 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl01634 544556003558 CRISPR-associated (Cas) DxTHG family; Region: Cas_DxTHG; pfam09455 544556003559 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09732 544556003560 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl17439 544556003561 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 544556003562 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 544556003563 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 544556003564 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 544556003565 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 544556003566 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440 544556003567 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 544556003568 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 544556003569 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556003570 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 544556003571 homodimer interface [polypeptide binding]; other site 544556003572 homotetramer interface [polypeptide binding]; other site 544556003573 active site pocket [active] 544556003574 cleavage site 544556003575 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 544556003576 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 544556003577 putative active site [active] 544556003578 putative NTP binding site [chemical binding]; other site 544556003579 putative nucleic acid binding site [nucleotide binding]; other site 544556003580 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 544556003581 drug efflux system protein MdtG; Provisional; Region: PRK09874 544556003582 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 544556003583 putative substrate translocation pore; other site 544556003584 phage shock protein A; Region: phageshock_pspA; TIGR02977 544556003585 Predicted membrane protein [Function unknown]; Region: COG1511 544556003586 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 544556003587 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 544556003588 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 544556003589 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 544556003590 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 544556003591 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 544556003592 dimer interface [polypeptide binding]; other site 544556003593 phosphorylation site [posttranslational modification] 544556003594 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 544556003595 ATP binding site [chemical binding]; other site 544556003596 Mg2+ binding site [ion binding]; other site 544556003597 G-X-G motif; other site 544556003598 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 544556003599 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 544556003600 active site 544556003601 phosphorylation site [posttranslational modification] 544556003602 intermolecular recognition site; other site 544556003603 dimerization interface [polypeptide binding]; other site 544556003604 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 544556003605 DNA binding site [nucleotide binding] 544556003606 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 544556003607 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 544556003608 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 544556003609 protein binding site [polypeptide binding]; other site 544556003610 Uncharacterized distant relative of cell wall-associated hydrolases [Function unknown]; Region: COG3863 544556003611 Protein of unknown function (DUF962); Region: DUF962; pfam06127 544556003612 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 544556003613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 544556003614 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 544556003615 putative lipid kinase; Reviewed; Region: PRK13337 544556003616 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 544556003617 TRAM domain; Region: TRAM; cl01282 544556003618 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 544556003619 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 544556003620 S-adenosylmethionine binding site [chemical binding]; other site 544556003621 PemK-like protein; Region: PemK; pfam02452 544556003622 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 544556003623 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 544556003624 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 544556003625 dimerization interface [polypeptide binding]; other site 544556003626 putative DNA binding site [nucleotide binding]; other site 544556003627 putative Zn2+ binding site [ion binding]; other site 544556003628 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 544556003629 putative hydrophobic ligand binding site [chemical binding]; other site 544556003630 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 544556003631 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 544556003632 S-adenosylmethionine binding site [chemical binding]; other site 544556003633 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 544556003634 SpoOM protein; Region: Spo0M; pfam07070 544556003635 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 544556003636 active site 544556003637 8-oxo-dGMP binding site [chemical binding]; other site 544556003638 nudix motif; other site 544556003639 metal binding site [ion binding]; metal-binding site 544556003640 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 544556003641 LabA_like proteins; Region: LabA_like; cd06167 544556003642 putative metal binding site [ion binding]; other site 544556003643 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 544556003644 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 544556003645 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 544556003646 active site 544556003647 Substrate binding site; other site 544556003648 Mg++ binding site; other site 544556003649 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 544556003650 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 544556003651 putative trimer interface [polypeptide binding]; other site 544556003652 putative CoA binding site [chemical binding]; other site 544556003653 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 544556003654 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 544556003655 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 544556003656 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 544556003657 active site 544556003658 substrate binding site [chemical binding]; other site 544556003659 metal binding site [ion binding]; metal-binding site 544556003660 Sensory domain found in PocR; Region: PocR; pfam10114 544556003661 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 544556003662 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 544556003663 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 544556003664 DNA binding residues [nucleotide binding] 544556003665 dimerization interface [polypeptide binding]; other site 544556003666 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 544556003667 anti sigma factor interaction site; other site 544556003668 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 544556003669 regulatory phosphorylation site [posttranslational modification]; other site 544556003670 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 544556003671 PAS fold; Region: PAS_3; pfam08447 544556003672 putative active site [active] 544556003673 heme pocket [chemical binding]; other site 544556003674 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 544556003675 PAS domain; Region: PAS_9; pfam13426 544556003676 putative active site [active] 544556003677 heme pocket [chemical binding]; other site 544556003678 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 544556003679 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 544556003680 RDD family; Region: RDD; pfam06271 544556003681 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 544556003682 dimerization interface [polypeptide binding]; other site 544556003683 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 544556003684 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 544556003685 dimer interface [polypeptide binding]; other site 544556003686 putative CheW interface [polypeptide binding]; other site 544556003687 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 544556003688 ThiC-associated domain; Region: ThiC-associated; pfam13667 544556003689 ThiC family; Region: ThiC; pfam01964 544556003690 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 544556003691 Probable transposase; Region: OrfB_IS605; pfam01385 544556003692 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 544556003693 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 544556003694 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 544556003695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556003696 homodimer interface [polypeptide binding]; other site 544556003697 catalytic residue [active] 544556003698 thiamine pyrophosphate protein; Validated; Region: PRK08199 544556003699 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 544556003700 PYR/PP interface [polypeptide binding]; other site 544556003701 dimer interface [polypeptide binding]; other site 544556003702 TPP binding site [chemical binding]; other site 544556003703 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 544556003704 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 544556003705 TPP-binding site [chemical binding]; other site 544556003706 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 544556003707 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 544556003708 NAD(P) binding site [chemical binding]; other site 544556003709 catalytic residues [active] 544556003710 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 544556003711 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 544556003712 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 544556003713 Major Facilitator Superfamily; Region: MFS_1; pfam07690 544556003714 putative substrate translocation pore; other site 544556003715 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 544556003716 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 544556003717 DNA binding residues [nucleotide binding] 544556003718 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 544556003719 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 544556003720 catalytic loop [active] 544556003721 iron binding site [ion binding]; other site 544556003722 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 544556003723 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 544556003724 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 544556003725 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 544556003726 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 544556003727 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 544556003728 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 544556003729 Ligand binding site; other site 544556003730 metal-binding site 544556003731 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 544556003732 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 544556003733 XdhC Rossmann domain; Region: XdhC_C; pfam13478 544556003734 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 544556003735 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 544556003736 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 544556003737 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 544556003738 hexamer interface [polypeptide binding]; other site 544556003739 RNA binding site [nucleotide binding]; other site 544556003740 Histidine-zinc binding site [chemical binding]; other site 544556003741 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 544556003742 active sites [active] 544556003743 tetramer interface [polypeptide binding]; other site 544556003744 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 544556003745 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 544556003746 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 544556003747 NAD binding site [chemical binding]; other site 544556003748 ligand binding site [chemical binding]; other site 544556003749 catalytic site [active] 544556003750 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 544556003751 Transposase; Region: DDE_Tnp_ISL3; pfam01610 544556003752 Class I aldolases; Region: Aldolase_Class_I; cl17187 544556003753 Uncharacterized conserved protein [Function unknown]; Region: COG1556 544556003754 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 544556003755 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 544556003756 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 544556003757 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 544556003758 Cysteine-rich domain; Region: CCG; pfam02754 544556003759 Cysteine-rich domain; Region: CCG; pfam02754 544556003760 Transcriptional regulators [Transcription]; Region: FadR; COG2186 544556003761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 544556003762 DNA-binding site [nucleotide binding]; DNA binding site 544556003763 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 544556003764 L-lactate permease; Region: Lactate_perm; cl00701 544556003765 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 544556003766 rod shape-determining protein MreB; Provisional; Region: PRK13930 544556003767 MreB and similar proteins; Region: MreB_like; cd10225 544556003768 nucleotide binding site [chemical binding]; other site 544556003769 Mg binding site [ion binding]; other site 544556003770 putative protofilament interaction site [polypeptide binding]; other site 544556003771 RodZ interaction site [polypeptide binding]; other site 544556003772 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 544556003773 NlpC/P60 family; Region: NLPC_P60; pfam00877 544556003774 PAS domain S-box; Region: sensory_box; TIGR00229 544556003775 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 544556003776 putative active site [active] 544556003777 heme pocket [chemical binding]; other site 544556003778 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 544556003779 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 544556003780 metal binding site [ion binding]; metal-binding site 544556003781 active site 544556003782 I-site; other site 544556003783 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 544556003784 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 544556003785 The Phox Homology domain, a phosphoinositide binding module; Region: PX_domain; cl02563 544556003786 phosphoinositide binding site [chemical binding]; other site 544556003787 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 544556003788 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 544556003789 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 544556003790 bacillithiol biosynthesis deacetylase BshB2; Region: thiol_BshB2; TIGR04000 544556003791 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 544556003792 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 544556003793 active site 544556003794 metal binding site [ion binding]; metal-binding site 544556003795 acylphosphatase; Provisional; Region: PRK14420 544556003796 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 544556003797 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 544556003798 putative active site [active] 544556003799 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 544556003800 putative active site [active] 544556003801 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 544556003802 active site 544556003803 SAM binding site [chemical binding]; other site 544556003804 homodimer interface [polypeptide binding]; other site 544556003805 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 544556003806 ligand-binding site [chemical binding]; other site 544556003807 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 544556003808 ATP-sulfurylase; Region: ATPS; cd00517 544556003809 active site 544556003810 HXXH motif; other site 544556003811 flexible loop; other site 544556003812 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 544556003813 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 544556003814 Active Sites [active] 544556003815 Protein of unknown function (DUF1128); Region: DUF1128; pfam06569 544556003816 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 544556003817 Low molecular weight phosphatase family; Region: LMWPc; cd00115 544556003818 active site 544556003819 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 544556003820 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 544556003821 Major Facilitator Superfamily; Region: MFS_1; pfam07690 544556003822 putative substrate translocation pore; other site 544556003823 calcium/proton exchanger (cax); Region: cax; TIGR00378 544556003824 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 544556003825 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 544556003826 YfkD-like protein; Region: YfkD; pfam14167 544556003827 Radical SAM superfamily; Region: Radical_SAM; pfam04055 544556003828 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 544556003829 FeS/SAM binding site; other site 544556003830 YfkB-like domain; Region: YfkB; pfam08756 544556003831 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 544556003832 fumarate hydratase FumB; Provisional; Region: PRK15391 544556003833 Fumarase C-terminus; Region: Fumerase_C; pfam05683 544556003834 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 544556003835 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 544556003836 NodB motif; other site 544556003837 active site 544556003838 catalytic site [active] 544556003839 Cd binding site [ion binding]; other site 544556003840 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 544556003841 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 544556003842 minor groove reading motif; other site 544556003843 helix-hairpin-helix signature motif; other site 544556003844 substrate binding pocket [chemical binding]; other site 544556003845 active site 544556003846 TRAM domain; Region: TRAM; pfam01938 544556003847 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 544556003848 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 544556003849 S-adenosylmethionine binding site [chemical binding]; other site 544556003850 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 544556003851 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 544556003852 SnoaL-like domain; Region: SnoaL_3; pfam13474 544556003853 phage shock protein A; Region: phageshock_pspA; TIGR02977 544556003854 Predicted membrane protein [Function unknown]; Region: COG4758 544556003855 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 544556003856 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 544556003857 Histidine kinase; Region: HisKA_3; pfam07730 544556003858 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 544556003859 ATP binding site [chemical binding]; other site 544556003860 Mg2+ binding site [ion binding]; other site 544556003861 G-X-G motif; other site 544556003862 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 544556003863 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 544556003864 active site 544556003865 phosphorylation site [posttranslational modification] 544556003866 intermolecular recognition site; other site 544556003867 dimerization interface [polypeptide binding]; other site 544556003868 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 544556003869 DNA binding residues [nucleotide binding] 544556003870 dimerization interface [polypeptide binding]; other site 544556003871 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 544556003872 Uncharacterized conserved protein [Function unknown]; Region: COG0397 544556003873 hypothetical protein; Validated; Region: PRK00029 544556003874 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 544556003875 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 544556003876 DNA binding residues [nucleotide binding] 544556003877 dimer interface [polypeptide binding]; other site 544556003878 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 544556003879 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 544556003880 Uncharacterized conserved protein (DUF2294); Region: DUF2294; pfam10057 544556003881 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 544556003882 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 544556003883 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 544556003884 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 544556003885 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 544556003886 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 544556003887 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 544556003888 active site 544556003889 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 544556003890 CoA-transferase family III; Region: CoA_transf_3; pfam02515 544556003891 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 544556003892 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 544556003893 Ligand binding site; other site 544556003894 metal-binding site 544556003895 YfhD-like protein; Region: YfhD; pfam14151 544556003896 YfhE-like protein; Region: YfhE; pfam14152 544556003897 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 544556003898 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 544556003899 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 544556003900 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 544556003901 putative NAD(P) binding site [chemical binding]; other site 544556003902 putative active site [active] 544556003903 recombination regulator RecX; Provisional; Region: recX; PRK14135 544556003904 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 544556003905 YpzG-like protein; Region: YpzG; pfam14139 544556003906 acid-soluble spore protein K; Provisional; Region: sspK; PRK03081 544556003907 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 544556003908 Uncharacterized conserved protein [Function unknown]; Region: COG2427 544556003909 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 544556003910 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 544556003911 catalytic loop [active] 544556003912 iron binding site [ion binding]; other site 544556003913 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 544556003914 4Fe-4S binding domain; Region: Fer4; pfam00037 544556003915 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 544556003916 [4Fe-4S] binding site [ion binding]; other site 544556003917 molybdopterin cofactor binding site; other site 544556003918 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 544556003919 molybdopterin cofactor binding site; other site 544556003920 Uncharacterized conserved protein (DUF2294); Region: DUF2294; pfam10057 544556003921 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 544556003922 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 544556003923 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 544556003924 putative substrate translocation pore; other site 544556003925 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 544556003926 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 544556003927 minor groove reading motif; other site 544556003928 helix-hairpin-helix signature motif; other site 544556003929 substrate binding pocket [chemical binding]; other site 544556003930 active site 544556003931 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 544556003932 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 544556003933 DNA binding and oxoG recognition site [nucleotide binding] 544556003934 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 544556003935 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 544556003936 putative NAD(P) binding site [chemical binding]; other site 544556003937 active site 544556003938 YgaB-like protein; Region: YgaB; pfam14182 544556003939 hypothetical protein; Provisional; Region: PRK13662 544556003940 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 544556003941 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556003942 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 544556003943 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 544556003944 peptide binding site [polypeptide binding]; other site 544556003945 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 544556003946 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 544556003947 dimer interface [polypeptide binding]; other site 544556003948 conserved gate region; other site 544556003949 putative PBP binding loops; other site 544556003950 ABC-ATPase subunit interface; other site 544556003951 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 544556003952 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 544556003953 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 544556003954 dimer interface [polypeptide binding]; other site 544556003955 conserved gate region; other site 544556003956 ABC-ATPase subunit interface; other site 544556003957 Predicted membrane protein [Function unknown]; Region: COG4129 544556003958 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 544556003959 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 544556003960 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 544556003961 inhibitor-cofactor binding pocket; inhibition site 544556003962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556003963 catalytic residue [active] 544556003964 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 544556003965 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 544556003966 Walker A/P-loop; other site 544556003967 ATP binding site [chemical binding]; other site 544556003968 Q-loop/lid; other site 544556003969 ABC transporter signature motif; other site 544556003970 Walker B; other site 544556003971 D-loop; other site 544556003972 H-loop/switch region; other site 544556003973 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 544556003974 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 544556003975 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 544556003976 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 544556003977 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 544556003978 tetramer (dimer of dimers) interface [polypeptide binding]; other site 544556003979 NAD binding site [chemical binding]; other site 544556003980 dimer interface [polypeptide binding]; other site 544556003981 substrate binding site [chemical binding]; other site 544556003982 Ion channel; Region: Ion_trans_2; pfam07885 544556003983 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 544556003984 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 544556003985 catalytic triad [active] 544556003986 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 544556003987 metal binding site 2 [ion binding]; metal-binding site 544556003988 putative DNA binding helix; other site 544556003989 metal binding site 1 [ion binding]; metal-binding site 544556003990 dimer interface [polypeptide binding]; other site 544556003991 structural Zn2+ binding site [ion binding]; other site 544556003992 Protein of unknown function (DUF2614); Region: DUF2614; pfam11023 544556003993 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 544556003994 B3/4 domain; Region: B3_4; pfam03483 544556003995 epoxyqueuosine reductase; Region: TIGR00276 544556003996 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 544556003997 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cd00020 544556003998 protein binding surface [polypeptide binding]; other site 544556003999 Putative amidase domain; Region: Amidase_6; pfam12671 544556004000 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 544556004001 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 544556004002 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 544556004003 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 544556004004 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 544556004005 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 544556004006 active site 544556004007 phosphorylation site [posttranslational modification] 544556004008 intermolecular recognition site; other site 544556004009 dimerization interface [polypeptide binding]; other site 544556004010 HTH domain; Region: HTH_11; pfam08279 544556004011 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 544556004012 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 544556004013 putative active site [active] 544556004014 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 544556004015 ATP binding site [chemical binding]; other site 544556004016 Mg2+ binding site [ion binding]; other site 544556004017 G-X-G motif; other site 544556004018 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 544556004019 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 544556004020 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 544556004021 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 544556004022 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 544556004023 active site 544556004024 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 544556004025 catalytic tetrad [active] 544556004026 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 544556004027 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 544556004028 Domain of unknown function DUF21; Region: DUF21; pfam01595 544556004029 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 544556004030 Transporter associated domain; Region: CorC_HlyC; smart01091 544556004031 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 544556004032 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 544556004033 active site 544556004034 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 544556004035 catalytic residues [active] 544556004036 putative disulfide oxidoreductase; Provisional; Region: PRK03113 544556004037 FOG: CBS domain [General function prediction only]; Region: COG0517 544556004038 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 544556004039 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 544556004040 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 544556004041 active site 544556004042 substrate binding site [chemical binding]; other site 544556004043 metal binding site [ion binding]; metal-binding site 544556004044 YhdB-like protein; Region: YhdB; pfam14148 544556004045 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 544556004046 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 544556004047 DDE superfamily endonuclease; Region: DDE_5; cl17874 544556004048 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556004049 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 544556004050 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 544556004051 SpoVR like protein; Region: SpoVR; pfam04293 544556004052 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 544556004053 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 544556004054 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 544556004055 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556004056 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 544556004057 carbon starvation protein A; Provisional; Region: PRK15015 544556004058 Carbon starvation protein CstA; Region: CstA; pfam02554 544556004059 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 544556004060 Protein of unknown function (DUF466); Region: DUF466; pfam04328 544556004061 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 544556004062 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 544556004063 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 544556004064 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 544556004065 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 544556004066 Ca binding site [ion binding]; other site 544556004067 active site 544556004068 catalytic site [active] 544556004069 metal-dependent hydrolase; Provisional; Region: PRK13291 544556004070 DinB superfamily; Region: DinB_2; pfam12867 544556004071 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 544556004072 putative transporter; Provisional; Region: PRK12382 544556004073 putative substrate translocation pore; other site 544556004074 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 544556004075 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 544556004076 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 544556004077 putative RNA binding site [nucleotide binding]; other site 544556004078 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 544556004079 S-adenosylmethionine binding site [chemical binding]; other site 544556004080 Putative transcription activator [Transcription]; Region: TenA; COG0819 544556004081 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 544556004082 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 544556004083 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 544556004084 Walker A/P-loop; other site 544556004085 ATP binding site [chemical binding]; other site 544556004086 Q-loop/lid; other site 544556004087 ABC transporter signature motif; other site 544556004088 Walker B; other site 544556004089 D-loop; other site 544556004090 H-loop/switch region; other site 544556004091 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 544556004092 Walker A/P-loop; other site 544556004093 ATP binding site [chemical binding]; other site 544556004094 Q-loop/lid; other site 544556004095 ABC transporter signature motif; other site 544556004096 Walker B; other site 544556004097 D-loop; other site 544556004098 H-loop/switch region; other site 544556004099 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 544556004100 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 544556004101 thiamine phosphate binding site [chemical binding]; other site 544556004102 active site 544556004103 pyrophosphate binding site [ion binding]; other site 544556004104 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 544556004105 hydroxyglutarate oxidase; Provisional; Region: PRK11728 544556004106 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 544556004107 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 544556004108 thiS-thiF/thiG interaction site; other site 544556004109 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 544556004110 ThiS interaction site; other site 544556004111 putative active site [active] 544556004112 tetramer interface [polypeptide binding]; other site 544556004113 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 544556004114 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 544556004115 ATP binding site [chemical binding]; other site 544556004116 substrate interface [chemical binding]; other site 544556004117 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 544556004118 Domain of unknown function DUF21; Region: DUF21; pfam01595 544556004119 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 544556004120 Transporter associated domain; Region: CorC_HlyC; smart01091 544556004121 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 544556004122 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 544556004123 putative active site [active] 544556004124 putative NTP binding site [chemical binding]; other site 544556004125 putative nucleic acid binding site [nucleotide binding]; other site 544556004126 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 544556004127 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 544556004128 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 544556004129 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 544556004130 Walker A/P-loop; other site 544556004131 ATP binding site [chemical binding]; other site 544556004132 Q-loop/lid; other site 544556004133 ABC transporter signature motif; other site 544556004134 Walker B; other site 544556004135 D-loop; other site 544556004136 H-loop/switch region; other site 544556004137 TOBE domain; Region: TOBE; pfam03459 544556004138 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 544556004139 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 544556004140 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 544556004141 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 544556004142 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 544556004143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 544556004144 hypothetical protein; Provisional; Region: PRK13676 544556004145 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 544556004146 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 544556004147 active site 544556004148 motif I; other site 544556004149 motif II; other site 544556004150 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 544556004151 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 544556004152 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 544556004153 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 544556004154 Walker A/P-loop; other site 544556004155 ATP binding site [chemical binding]; other site 544556004156 Q-loop/lid; other site 544556004157 ABC transporter signature motif; other site 544556004158 Walker B; other site 544556004159 D-loop; other site 544556004160 H-loop/switch region; other site 544556004161 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 544556004162 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 544556004163 Walker A/P-loop; other site 544556004164 ATP binding site [chemical binding]; other site 544556004165 Q-loop/lid; other site 544556004166 ABC transporter signature motif; other site 544556004167 Walker B; other site 544556004168 D-loop; other site 544556004169 H-loop/switch region; other site 544556004170 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 544556004171 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 544556004172 FeS/SAM binding site; other site 544556004173 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 544556004174 Cys-rich peptide radical SAM maturase CcpM; Region: rSAM_ocin_clost; TIGR04068 544556004175 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 544556004176 FeS/SAM binding site; other site 544556004177 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 544556004178 Transposase; Region: DDE_Tnp_ISL3; pfam01610 544556004179 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 544556004180 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556004181 Transposase domain (DUF772); Region: DUF772; pfam05598 544556004182 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 544556004183 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; cl15377 544556004184 FeS/SAM binding site; other site 544556004185 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 544556004186 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556004187 YhzD-like protein; Region: YhzD; pfam14120 544556004188 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 544556004189 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 544556004190 Walker A/P-loop; other site 544556004191 ATP binding site [chemical binding]; other site 544556004192 Q-loop/lid; other site 544556004193 ABC transporter signature motif; other site 544556004194 Walker B; other site 544556004195 D-loop; other site 544556004196 H-loop/switch region; other site 544556004197 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 544556004198 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 544556004199 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 544556004200 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 544556004201 generic binding surface II; other site 544556004202 generic binding surface I; other site 544556004203 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 544556004204 Zn2+ binding site [ion binding]; other site 544556004205 Mg2+ binding site [ion binding]; other site 544556004206 Sporulation protein YhaL; Region: Spore_YhaL; pfam14147 544556004207 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 544556004208 homodimer interface [polypeptide binding]; other site 544556004209 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 544556004210 substrate-cofactor binding pocket; other site 544556004211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556004212 catalytic residue [active] 544556004213 transcriptional regulator Hpr; Provisional; Region: PRK13777 544556004214 MarR family; Region: MarR; pfam01047 544556004215 Protein of unknown function (DUF1878); Region: DUF1878; pfam08963 544556004216 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 544556004217 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 544556004218 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 544556004219 HIT family signature motif; other site 544556004220 catalytic residue [active] 544556004221 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 544556004222 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 544556004223 Walker A/P-loop; other site 544556004224 ATP binding site [chemical binding]; other site 544556004225 Q-loop/lid; other site 544556004226 ABC transporter signature motif; other site 544556004227 Walker B; other site 544556004228 D-loop; other site 544556004229 H-loop/switch region; other site 544556004230 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 544556004231 Citrate transporter; Region: CitMHS; pfam03600 544556004232 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 544556004233 substrate binding site [chemical binding]; other site 544556004234 active site 544556004235 ferrochelatase; Provisional; Region: PRK12435 544556004236 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 544556004237 C-terminal domain interface [polypeptide binding]; other site 544556004238 active site 544556004239 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 544556004240 active site 544556004241 N-terminal domain interface [polypeptide binding]; other site 544556004242 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 544556004243 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 544556004244 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 544556004245 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 544556004246 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 544556004247 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 544556004248 YhfH-like protein; Region: YhfH; pfam14149 544556004249 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 544556004250 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 544556004251 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 544556004252 acyl-activating enzyme (AAE) consensus motif; other site 544556004253 putative AMP binding site [chemical binding]; other site 544556004254 putative active site [active] 544556004255 putative CoA binding site [chemical binding]; other site 544556004256 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 544556004257 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 544556004258 zinc binding site [ion binding]; other site 544556004259 putative ligand binding site [chemical binding]; other site 544556004260 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 544556004261 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 544556004262 TM-ABC transporter signature motif; other site 544556004263 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 544556004264 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 544556004265 Walker A/P-loop; other site 544556004266 ATP binding site [chemical binding]; other site 544556004267 Q-loop/lid; other site 544556004268 ABC transporter signature motif; other site 544556004269 Walker B; other site 544556004270 D-loop; other site 544556004271 H-loop/switch region; other site 544556004272 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 544556004273 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 544556004274 homodimer interface [polypeptide binding]; other site 544556004275 substrate-cofactor binding pocket; other site 544556004276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556004277 catalytic residue [active] 544556004278 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 544556004279 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 544556004280 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 544556004281 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 544556004282 Cu(I) binding site [ion binding]; other site 544556004283 isocitrate lyase; Provisional; Region: PRK15063 544556004284 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 544556004285 tetramer interface [polypeptide binding]; other site 544556004286 active site 544556004287 Mg2+/Mn2+ binding site [ion binding]; other site 544556004288 ComK protein; Region: ComK; pfam06338 544556004289 Uncharacterized conserved protein [Function unknown]; Region: COG0398 544556004290 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 544556004291 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 544556004292 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 544556004293 Catalytic site [active] 544556004294 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 544556004295 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 544556004296 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 544556004297 Part of AAA domain; Region: AAA_19; pfam13245 544556004298 Family description; Region: UvrD_C_2; pfam13538 544556004299 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 544556004300 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 544556004301 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 544556004302 active site 544556004303 metal binding site [ion binding]; metal-binding site 544556004304 DNA binding site [nucleotide binding] 544556004305 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 544556004306 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 544556004307 AAA domain; Region: AAA_23; pfam13476 544556004308 Walker A/P-loop; other site 544556004309 ATP binding site [chemical binding]; other site 544556004310 Q-loop/lid; other site 544556004311 ABC transporter signature motif; other site 544556004312 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 544556004313 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 544556004314 ABC transporter signature motif; other site 544556004315 Walker B; other site 544556004316 D-loop; other site 544556004317 H-loop/switch region; other site 544556004318 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 544556004319 Protein of unknown function (DUF2772); Region: DUF2772; pfam10970 544556004320 Spore germination protein GerPC; Region: GerPC; pfam10737 544556004321 Protein of unknown function (DUF2539); Region: DUF2539; pfam10803 544556004322 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 544556004323 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 544556004324 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 544556004325 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 544556004326 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 544556004327 acyl-activating enzyme (AAE) consensus motif; other site 544556004328 putative active site [active] 544556004329 AMP binding site [chemical binding]; other site 544556004330 putative CoA binding site [chemical binding]; other site 544556004331 Predicted membrane protein [Function unknown]; Region: COG2311 544556004332 Protein of unknown function (DUF418); Region: DUF418; cl12135 544556004333 Protein of unknown function (DUF418); Region: DUF418; pfam04235 544556004334 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 544556004335 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 544556004336 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 544556004337 hypothetical protein; Provisional; Region: PRK13673 544556004338 FIST N domain; Region: FIST; pfam08495 544556004339 FIST C domain; Region: FIST_C; pfam10442 544556004340 PAS domain S-box; Region: sensory_box; TIGR00229 544556004341 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 544556004342 putative active site [active] 544556004343 heme pocket [chemical binding]; other site 544556004344 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 544556004345 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 544556004346 metal binding site [ion binding]; metal-binding site 544556004347 active site 544556004348 I-site; other site 544556004349 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 544556004350 Protein of unknown function (DUF2777); Region: DUF2777; pfam10949 544556004351 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 544556004352 active site 544556004353 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 544556004354 dimer interface [polypeptide binding]; other site 544556004355 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 544556004356 Ligand Binding Site [chemical binding]; other site 544556004357 Molecular Tunnel; other site 544556004358 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 544556004359 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 544556004360 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 544556004361 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 544556004362 Probable transposase; Region: OrfB_IS605; pfam01385 544556004363 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 544556004364 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 544556004365 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 544556004366 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 544556004367 homodimer interface [polypeptide binding]; other site 544556004368 maltodextrin glucosidase; Provisional; Region: PRK10785 544556004369 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 544556004370 active site 544556004371 homodimer interface [polypeptide binding]; other site 544556004372 catalytic site [active] 544556004373 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 544556004374 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 544556004375 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 544556004376 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 544556004377 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 544556004378 dimer interface [polypeptide binding]; other site 544556004379 conserved gate region; other site 544556004380 putative PBP binding loops; other site 544556004381 ABC-ATPase subunit interface; other site 544556004382 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 544556004383 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 544556004384 dimer interface [polypeptide binding]; other site 544556004385 conserved gate region; other site 544556004386 putative PBP binding loops; other site 544556004387 ABC-ATPase subunit interface; other site 544556004388 trehalose synthase; Region: treS_nterm; TIGR02456 544556004389 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 544556004390 active site 544556004391 catalytic site [active] 544556004392 Transcriptional regulators [Transcription]; Region: PurR; COG1609 544556004393 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 544556004394 DNA binding site [nucleotide binding] 544556004395 domain linker motif; other site 544556004396 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 544556004397 putative dimerization interface [polypeptide binding]; other site 544556004398 putative ligand binding site [chemical binding]; other site 544556004399 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 544556004400 Bacterial transcriptional regulator; Region: IclR; pfam01614 544556004401 PAS domain; Region: PAS; smart00091 544556004402 putative active site [active] 544556004403 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 544556004404 Walker A motif; other site 544556004405 ATP binding site [chemical binding]; other site 544556004406 Walker B motif; other site 544556004407 arginine finger; other site 544556004408 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 544556004409 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 544556004410 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 544556004411 tetramer interface [polypeptide binding]; other site 544556004412 TPP-binding site [chemical binding]; other site 544556004413 heterodimer interface [polypeptide binding]; other site 544556004414 phosphorylation loop region [posttranslational modification] 544556004415 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 544556004416 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 544556004417 alpha subunit interface [polypeptide binding]; other site 544556004418 TPP binding site [chemical binding]; other site 544556004419 heterodimer interface [polypeptide binding]; other site 544556004420 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 544556004421 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 544556004422 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 544556004423 E3 interaction surface; other site 544556004424 lipoyl attachment site [posttranslational modification]; other site 544556004425 e3 binding domain; Region: E3_binding; pfam02817 544556004426 e3 binding domain; Region: E3_binding; pfam02817 544556004427 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 544556004428 short chain dehydrogenase; Provisional; Region: PRK06701 544556004429 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 544556004430 NAD binding site [chemical binding]; other site 544556004431 metal binding site [ion binding]; metal-binding site 544556004432 active site 544556004433 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 544556004434 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 544556004435 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 544556004436 putative active site [active] 544556004437 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 544556004438 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 544556004439 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 544556004440 substrate binding pocket [chemical binding]; other site 544556004441 dimer interface [polypeptide binding]; other site 544556004442 inhibitor binding site; inhibition site 544556004443 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 544556004444 B12 binding site [chemical binding]; other site 544556004445 cobalt ligand [ion binding]; other site 544556004446 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 544556004447 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 544556004448 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 544556004449 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 544556004450 FAD binding site [chemical binding]; other site 544556004451 Double zinc ribbon; Region: DZR; pfam12773 544556004452 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 544556004453 S-S bond formation pathway protein; Provisional; Region: PHA02947; cl17416 544556004454 Bacteriocin class IId cyclical uberolysin-like; Region: Bacteriocin_IId; pfam09221 544556004455 Integral membrane protein DUF95; Region: DUF95; pfam01944 544556004456 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 544556004457 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 544556004458 Walker A/P-loop; other site 544556004459 ATP binding site [chemical binding]; other site 544556004460 Q-loop/lid; other site 544556004461 ABC transporter signature motif; other site 544556004462 Walker B; other site 544556004463 D-loop; other site 544556004464 H-loop/switch region; other site 544556004465 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 544556004466 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 544556004467 Walker A/P-loop; other site 544556004468 ATP binding site [chemical binding]; other site 544556004469 Q-loop/lid; other site 544556004470 ABC transporter signature motif; other site 544556004471 Walker B; other site 544556004472 D-loop; other site 544556004473 H-loop/switch region; other site 544556004474 TOBE domain; Region: TOBE_2; pfam08402 544556004475 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 544556004476 dimer interface [polypeptide binding]; other site 544556004477 conserved gate region; other site 544556004478 putative PBP binding loops; other site 544556004479 ABC-ATPase subunit interface; other site 544556004480 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 544556004481 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 544556004482 dimer interface [polypeptide binding]; other site 544556004483 conserved gate region; other site 544556004484 putative PBP binding loops; other site 544556004485 ABC-ATPase subunit interface; other site 544556004486 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 544556004487 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 544556004488 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 544556004489 DinB superfamily; Region: DinB_2; pfam12867 544556004490 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 544556004491 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 544556004492 Walker A/P-loop; other site 544556004493 ATP binding site [chemical binding]; other site 544556004494 Q-loop/lid; other site 544556004495 ABC transporter signature motif; other site 544556004496 Walker B; other site 544556004497 D-loop; other site 544556004498 H-loop/switch region; other site 544556004499 Peptidase family M48; Region: Peptidase_M48; cl12018 544556004500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 544556004501 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 544556004502 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 544556004503 Fic family protein [Function unknown]; Region: COG3177 544556004504 Fic/DOC family; Region: Fic; pfam02661 544556004505 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 544556004506 EDD domain protein, DegV family; Region: DegV; TIGR00762 544556004507 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 544556004508 Protein of unknown function (DUF3813); Region: DUF3813; pfam12758 544556004509 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 544556004510 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 544556004511 active site 544556004512 motif I; other site 544556004513 motif II; other site 544556004514 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 544556004515 esterase; Provisional; Region: PRK10566 544556004516 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 544556004517 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 544556004518 dimerization interface [polypeptide binding]; other site 544556004519 putative DNA binding site [nucleotide binding]; other site 544556004520 putative Zn2+ binding site [ion binding]; other site 544556004521 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 544556004522 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 544556004523 metal-binding site [ion binding] 544556004524 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 544556004525 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 544556004526 motif II; other site 544556004527 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 544556004528 homodimer interaction site [polypeptide binding]; other site 544556004529 cofactor binding site; other site 544556004530 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 544556004531 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 544556004532 CPxP motif; other site 544556004533 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 544556004534 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 544556004535 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 544556004536 ligand binding site [chemical binding]; other site 544556004537 flexible hinge region; other site 544556004538 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 544556004539 non-specific DNA interactions [nucleotide binding]; other site 544556004540 DNA binding site [nucleotide binding] 544556004541 sequence specific DNA binding site [nucleotide binding]; other site 544556004542 putative cAMP binding site [chemical binding]; other site 544556004543 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 544556004544 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 544556004545 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 544556004546 D-pathway; other site 544556004547 Low-spin heme binding site [chemical binding]; other site 544556004548 Tht1-like nuclear fusion protein; Region: Tht1; pfam04163 544556004549 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556004550 DDE superfamily endonuclease; Region: DDE_5; cl17874 544556004551 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556004552 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 544556004553 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 544556004554 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 544556004555 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 544556004556 GTP binding site; other site 544556004557 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 544556004558 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 544556004559 active site 544556004560 phosphorylation site [posttranslational modification] 544556004561 intermolecular recognition site; other site 544556004562 dimerization interface [polypeptide binding]; other site 544556004563 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 544556004564 DNA binding residues [nucleotide binding] 544556004565 dimerization interface [polypeptide binding]; other site 544556004566 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 544556004567 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 544556004568 Walker A/P-loop; other site 544556004569 ATP binding site [chemical binding]; other site 544556004570 Q-loop/lid; other site 544556004571 ABC transporter signature motif; other site 544556004572 Walker B; other site 544556004573 D-loop; other site 544556004574 H-loop/switch region; other site 544556004575 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 544556004576 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 544556004577 Walker A/P-loop; other site 544556004578 ATP binding site [chemical binding]; other site 544556004579 Q-loop/lid; other site 544556004580 ABC transporter signature motif; other site 544556004581 Walker B; other site 544556004582 D-loop; other site 544556004583 H-loop/switch region; other site 544556004584 radical SAM protein, BA_1875 family; Region: sam_11; TIGR04053 544556004585 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 544556004586 FeS/SAM binding site; other site 544556004587 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 544556004588 Putative zinc-finger; Region: zf-HC2; pfam13490 544556004589 Anti-sigma-K factor rskA; Region: RskA; pfam10099 544556004590 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 544556004591 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 544556004592 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 544556004593 DNA binding residues [nucleotide binding] 544556004594 Predicted membrane protein [Function unknown]; Region: COG1470 544556004595 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 544556004596 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 544556004597 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 544556004598 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 544556004599 Walker A/P-loop; other site 544556004600 ATP binding site [chemical binding]; other site 544556004601 Q-loop/lid; other site 544556004602 ABC transporter signature motif; other site 544556004603 Walker B; other site 544556004604 D-loop; other site 544556004605 H-loop/switch region; other site 544556004606 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 544556004607 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 544556004608 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 544556004609 ligand binding site [chemical binding]; other site 544556004610 flexible hinge region; other site 544556004611 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 544556004612 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 544556004613 putative PBP binding loops; other site 544556004614 dimer interface [polypeptide binding]; other site 544556004615 ABC-ATPase subunit interface; other site 544556004616 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 544556004617 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 544556004618 FeS/SAM binding site; other site 544556004619 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 544556004620 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 544556004621 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 544556004622 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 544556004623 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 544556004624 dimer interface [polypeptide binding]; other site 544556004625 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 544556004626 putative CheW interface [polypeptide binding]; other site 544556004627 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 544556004628 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 544556004629 dimer interface [polypeptide binding]; other site 544556004630 putative functional site; other site 544556004631 putative MPT binding site; other site 544556004632 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 544556004633 Walker A motif; other site 544556004634 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 544556004635 MoaE homodimer interface [polypeptide binding]; other site 544556004636 MoaD interaction [polypeptide binding]; other site 544556004637 active site residues [active] 544556004638 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 544556004639 MoaE interaction surface [polypeptide binding]; other site 544556004640 MoeB interaction surface [polypeptide binding]; other site 544556004641 thiocarboxylated glycine; other site 544556004642 YwiC-like protein; Region: YwiC; pfam14256 544556004643 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 544556004644 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 544556004645 ligand binding site [chemical binding]; other site 544556004646 flexible hinge region; other site 544556004647 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 544556004648 putative switch regulator; other site 544556004649 non-specific DNA interactions [nucleotide binding]; other site 544556004650 DNA binding site [nucleotide binding] 544556004651 sequence specific DNA binding site [nucleotide binding]; other site 544556004652 putative cAMP binding site [chemical binding]; other site 544556004653 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 544556004654 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 544556004655 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 544556004656 heterotetramer interface [polypeptide binding]; other site 544556004657 active site pocket [active] 544556004658 cleavage site 544556004659 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 544556004660 nucleotide binding site [chemical binding]; other site 544556004661 N-acetyl-L-glutamate binding site [chemical binding]; other site 544556004662 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 544556004663 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 544556004664 inhibitor-cofactor binding pocket; inhibition site 544556004665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556004666 catalytic residue [active] 544556004667 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 544556004668 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 544556004669 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 544556004670 catalytic site [active] 544556004671 subunit interface [polypeptide binding]; other site 544556004672 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 544556004673 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 544556004674 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 544556004675 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 544556004676 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 544556004677 ATP-grasp domain; Region: ATP-grasp_4; cl17255 544556004678 ornithine carbamoyltransferase; Provisional; Region: PRK00779 544556004679 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 544556004680 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 544556004681 YjzC-like protein; Region: YjzC; pfam14168 544556004682 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 544556004683 Clp amino terminal domain; Region: Clp_N; pfam02861 544556004684 Clp amino terminal domain; Region: Clp_N; pfam02861 544556004685 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 544556004686 Walker A motif; other site 544556004687 ATP binding site [chemical binding]; other site 544556004688 Walker B motif; other site 544556004689 arginine finger; other site 544556004690 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 544556004691 Walker A motif; other site 544556004692 ATP binding site [chemical binding]; other site 544556004693 Walker B motif; other site 544556004694 arginine finger; other site 544556004695 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 544556004696 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 544556004697 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 544556004698 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 544556004699 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 544556004700 dimer interface [polypeptide binding]; other site 544556004701 active site 544556004702 CoA binding pocket [chemical binding]; other site 544556004703 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 544556004704 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 544556004705 dimer interface [polypeptide binding]; other site 544556004706 active site 544556004707 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; pfam10026 544556004708 Protein of unknown function (DUF3603); Region: DUF3603; pfam12227 544556004709 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 544556004710 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 544556004711 active site 544556004712 HIGH motif; other site 544556004713 dimer interface [polypeptide binding]; other site 544556004714 KMSKS motif; other site 544556004715 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 544556004716 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 544556004717 peptide binding site [polypeptide binding]; other site 544556004718 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 544556004719 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 544556004720 dimer interface [polypeptide binding]; other site 544556004721 conserved gate region; other site 544556004722 putative PBP binding loops; other site 544556004723 ABC-ATPase subunit interface; other site 544556004724 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 544556004725 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 544556004726 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 544556004727 dimer interface [polypeptide binding]; other site 544556004728 conserved gate region; other site 544556004729 putative PBP binding loops; other site 544556004730 ABC-ATPase subunit interface; other site 544556004731 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 544556004732 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 544556004733 Walker A/P-loop; other site 544556004734 ATP binding site [chemical binding]; other site 544556004735 Q-loop/lid; other site 544556004736 ABC transporter signature motif; other site 544556004737 Walker B; other site 544556004738 D-loop; other site 544556004739 H-loop/switch region; other site 544556004740 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 544556004741 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 544556004742 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 544556004743 Walker A/P-loop; other site 544556004744 ATP binding site [chemical binding]; other site 544556004745 Q-loop/lid; other site 544556004746 ABC transporter signature motif; other site 544556004747 Walker B; other site 544556004748 D-loop; other site 544556004749 H-loop/switch region; other site 544556004750 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 544556004751 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 544556004752 ArsC family; Region: ArsC; pfam03960 544556004753 putative catalytic residues [active] 544556004754 thiol/disulfide switch; other site 544556004755 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 544556004756 adaptor protein; Provisional; Region: PRK02315 544556004757 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 544556004758 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 544556004759 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 544556004760 putative active site [active] 544556004761 catalytic site [active] 544556004762 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 544556004763 putative active site [active] 544556004764 catalytic site [active] 544556004765 Competence protein CoiA-like family; Region: CoiA; cl11541 544556004766 oligoendopeptidase F; Region: pepF; TIGR00181 544556004767 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 544556004768 active site 544556004769 Zn binding site [ion binding]; other site 544556004770 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 544556004771 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 544556004772 catalytic residues [active] 544556004773 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 544556004774 apolar tunnel; other site 544556004775 heme binding site [chemical binding]; other site 544556004776 dimerization interface [polypeptide binding]; other site 544556004777 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 544556004778 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 544556004779 N-acetyl-D-glucosamine binding site [chemical binding]; other site 544556004780 catalytic residue [active] 544556004781 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 544556004782 putative active site [active] 544556004783 putative metal binding residues [ion binding]; other site 544556004784 signature motif; other site 544556004785 putative triphosphate binding site [ion binding]; other site 544556004786 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 544556004787 synthetase active site [active] 544556004788 NTP binding site [chemical binding]; other site 544556004789 metal binding site [ion binding]; metal-binding site 544556004790 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 544556004791 ATP-NAD kinase; Region: NAD_kinase; pfam01513 544556004792 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 544556004793 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 544556004794 active site 544556004795 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 544556004796 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 544556004797 active site 544556004798 metal binding site [ion binding]; metal-binding site 544556004799 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 544556004800 Probable transposase; Region: OrfB_IS605; pfam01385 544556004801 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 544556004802 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 544556004803 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 544556004804 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 544556004805 NAD binding site [chemical binding]; other site 544556004806 homotetramer interface [polypeptide binding]; other site 544556004807 homodimer interface [polypeptide binding]; other site 544556004808 substrate binding site [chemical binding]; other site 544556004809 active site 544556004810 Spore coat protein CotO; Region: Spore_coat_CotO; pfam14153 544556004811 Spore coat protein CotO; Region: Spore_coat_CotO; pfam14153 544556004812 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 544556004813 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 544556004814 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 544556004815 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 544556004816 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 544556004817 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 544556004818 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 544556004819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 544556004820 NAD(P) binding site [chemical binding]; other site 544556004821 active site 544556004822 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 544556004823 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 544556004824 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 544556004825 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 544556004826 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 544556004827 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 544556004828 putative ADP-binding pocket [chemical binding]; other site 544556004829 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 544556004830 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 544556004831 active site 544556004832 ATP binding site [chemical binding]; other site 544556004833 substrate binding site [chemical binding]; other site 544556004834 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 544556004835 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 544556004836 Bacteriophage holin; Region: Phage_holin_1; cl02344 544556004837 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 544556004838 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 544556004839 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 544556004840 stage V sporulation protein AD; Provisional; Region: PRK12404 544556004841 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 544556004842 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 544556004843 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 544556004844 Predicted membrane protein [Function unknown]; Region: COG2323 544556004845 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 544556004846 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 544556004847 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 544556004848 catalytic residues [active] 544556004849 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 544556004850 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 544556004851 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 544556004852 Coenzyme A binding pocket [chemical binding]; other site 544556004853 hypothetical protein; Provisional; Region: PRK13679 544556004854 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 544556004855 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 544556004856 Putative esterase; Region: Esterase; pfam00756 544556004857 cystathionine gamma-synthase; Reviewed; Region: PRK08247 544556004858 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 544556004859 homodimer interface [polypeptide binding]; other site 544556004860 substrate-cofactor binding pocket; other site 544556004861 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556004862 catalytic residue [active] 544556004863 cystathionine beta-lyase; Provisional; Region: PRK08064 544556004864 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 544556004865 homodimer interface [polypeptide binding]; other site 544556004866 substrate-cofactor binding pocket; other site 544556004867 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556004868 catalytic residue [active] 544556004869 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 544556004870 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 544556004871 Zn2+ binding site [ion binding]; other site 544556004872 Mg2+ binding site [ion binding]; other site 544556004873 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556004874 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 544556004875 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 544556004876 AAA domain; Region: AAA_18; pfam13238 544556004877 active site 544556004878 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 544556004879 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 544556004880 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 544556004881 ATP binding site [chemical binding]; other site 544556004882 putative Mg++ binding site [ion binding]; other site 544556004883 HsdM N-terminal domain; Region: HsdM_N; pfam12161 544556004884 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 544556004885 Methyltransferase domain; Region: Methyltransf_26; pfam13659 544556004886 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 544556004887 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 544556004888 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 544556004889 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 544556004890 dimerization interface [polypeptide binding]; other site 544556004891 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 544556004892 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 544556004893 dimer interface [polypeptide binding]; other site 544556004894 putative CheW interface [polypeptide binding]; other site 544556004895 Predicted membrane protein [Function unknown]; Region: COG2261 544556004896 gp58-like protein; Region: Gp58; pfam07902 544556004897 Predicted membrane protein [Function unknown]; Region: COG2855 544556004898 Transcriptional regulator [Transcription]; Region: LysR; COG0583 544556004899 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 544556004900 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 544556004901 putative dimerization interface [polypeptide binding]; other site 544556004902 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 544556004903 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 544556004904 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 544556004905 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 544556004906 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 544556004907 Walker A motif; other site 544556004908 ATP binding site [chemical binding]; other site 544556004909 Walker B motif; other site 544556004910 arginine finger; other site 544556004911 DDE superfamily endonuclease; Region: DDE_5; cl17874 544556004912 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556004913 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 544556004914 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 544556004915 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 544556004916 iron-sulfur cluster [ion binding]; other site 544556004917 [2Fe-2S] cluster binding site [ion binding]; other site 544556004918 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 544556004919 putative homodimer interface [polypeptide binding]; other site 544556004920 putative homotetramer interface [polypeptide binding]; other site 544556004921 putative allosteric switch controlling residues; other site 544556004922 putative metal binding site [ion binding]; other site 544556004923 putative homodimer-homodimer interface [polypeptide binding]; other site 544556004924 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 544556004925 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 544556004926 metal-binding site [ion binding] 544556004927 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 544556004928 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 544556004929 metal-binding site [ion binding] 544556004930 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 544556004931 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 544556004932 motif II; other site 544556004933 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 544556004934 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 544556004935 metal-binding site [ion binding] 544556004936 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 544556004937 active site 544556004938 NTP binding site [chemical binding]; other site 544556004939 metal binding triad [ion binding]; metal-binding site 544556004940 antibiotic binding site [chemical binding]; other site 544556004941 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 544556004942 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 544556004943 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 544556004944 putative active site [active] 544556004945 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 544556004946 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 544556004947 active site 544556004948 dimer interface [polypeptide binding]; other site 544556004949 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 544556004950 Ligand Binding Site [chemical binding]; other site 544556004951 Molecular Tunnel; other site 544556004952 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 544556004953 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; cl01054 544556004954 dimerization interface [polypeptide binding]; other site 544556004955 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 544556004956 dimer interface [polypeptide binding]; other site 544556004957 phosphorylation site [posttranslational modification] 544556004958 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 544556004959 ATP binding site [chemical binding]; other site 544556004960 Mg2+ binding site [ion binding]; other site 544556004961 G-X-G motif; other site 544556004962 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 544556004963 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 544556004964 active site 544556004965 phosphorylation site [posttranslational modification] 544556004966 intermolecular recognition site; other site 544556004967 dimerization interface [polypeptide binding]; other site 544556004968 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 544556004969 DNA binding site [nucleotide binding] 544556004970 ABC-2 type transporter; Region: ABC2_membrane; cl17235 544556004971 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 544556004972 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 544556004973 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 544556004974 Walker A/P-loop; other site 544556004975 ATP binding site [chemical binding]; other site 544556004976 Q-loop/lid; other site 544556004977 ABC transporter signature motif; other site 544556004978 Walker B; other site 544556004979 D-loop; other site 544556004980 H-loop/switch region; other site 544556004981 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 544556004982 Class I ribonucleotide reductase; Region: RNR_I; cd01679 544556004983 active site 544556004984 dimer interface [polypeptide binding]; other site 544556004985 catalytic residues [active] 544556004986 effector binding site; other site 544556004987 R2 peptide binding site; other site 544556004988 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 544556004989 dimer interface [polypeptide binding]; other site 544556004990 putative radical transfer pathway; other site 544556004991 diiron center [ion binding]; other site 544556004992 tyrosyl radical; other site 544556004993 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 544556004994 TPR motif; other site 544556004995 binding surface 544556004996 TPR repeat; Region: TPR_11; pfam13414 544556004997 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 544556004998 putative active site pocket [active] 544556004999 putative catalytic residue [active] 544556005000 dimerization interface [polypeptide binding]; other site 544556005001 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 544556005002 putative active site pocket [active] 544556005003 dimerization interface [polypeptide binding]; other site 544556005004 putative catalytic residue [active] 544556005005 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 544556005006 Zn2+ binding site [ion binding]; other site 544556005007 Mg2+ binding site [ion binding]; other site 544556005008 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 544556005009 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 544556005010 catalytic loop [active] 544556005011 iron binding site [ion binding]; other site 544556005012 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 544556005013 metabolite-proton symporter; Region: 2A0106; TIGR00883 544556005014 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 544556005015 putative substrate translocation pore; other site 544556005016 ornithine cyclodeaminase; Validated; Region: PRK08618 544556005017 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 544556005018 NAD(P) binding site [chemical binding]; other site 544556005019 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 544556005020 FAD binding domain; Region: FAD_binding_4; pfam01565 544556005021 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 544556005022 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 544556005023 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 544556005024 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 544556005025 Uncharacterized conserved protein [Function unknown]; Region: COG2966 544556005026 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 544556005027 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 544556005028 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 544556005029 M20 Peptidase Aminoacylase 1 amhX_like subfamily; Region: M20_Acy1_amhX_like; cd08018 544556005030 amidohydrolase; Region: amidohydrolases; TIGR01891 544556005031 metal binding site [ion binding]; metal-binding site 544556005032 putative dimer interface [polypeptide binding]; other site 544556005033 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 544556005034 Coenzyme A binding pocket [chemical binding]; other site 544556005035 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 544556005036 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 544556005037 active site 544556005038 octamer interface [polypeptide binding]; other site 544556005039 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 544556005040 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 544556005041 Na binding site [ion binding]; other site 544556005042 Protein of unknown function, DUF485; Region: DUF485; pfam04341 544556005043 amino acid transporter; Region: 2A0306; TIGR00909 544556005044 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 544556005045 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 544556005046 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 544556005047 Probable transposase; Region: OrfB_IS605; pfam01385 544556005048 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 544556005049 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 544556005050 Transcriptional regulators [Transcription]; Region: PurR; COG1609 544556005051 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 544556005052 DNA binding site [nucleotide binding] 544556005053 domain linker motif; other site 544556005054 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 544556005055 dimerization interface [polypeptide binding]; other site 544556005056 ligand binding site [chemical binding]; other site 544556005057 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 544556005058 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 544556005059 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 544556005060 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 544556005061 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 544556005062 dimer interface [polypeptide binding]; other site 544556005063 conserved gate region; other site 544556005064 putative PBP binding loops; other site 544556005065 ABC-ATPase subunit interface; other site 544556005066 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 544556005067 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 544556005068 dimer interface [polypeptide binding]; other site 544556005069 conserved gate region; other site 544556005070 putative PBP binding loops; other site 544556005071 ABC-ATPase subunit interface; other site 544556005072 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 544556005073 Major Facilitator Superfamily; Region: MFS_1; pfam07690 544556005074 putative substrate translocation pore; other site 544556005075 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 544556005076 Radical SAM superfamily; Region: Radical_SAM; pfam04055 544556005077 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 544556005078 FeS/SAM binding site; other site 544556005079 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 544556005080 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 544556005081 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 544556005082 putative active site [active] 544556005083 heme pocket [chemical binding]; other site 544556005084 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 544556005085 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 544556005086 putative active site [active] 544556005087 heme pocket [chemical binding]; other site 544556005088 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 544556005089 putative active site [active] 544556005090 heme pocket [chemical binding]; other site 544556005091 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 544556005092 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 544556005093 putative active site [active] 544556005094 heme pocket [chemical binding]; other site 544556005095 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 544556005096 dimer interface [polypeptide binding]; other site 544556005097 phosphorylation site [posttranslational modification] 544556005098 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 544556005099 ATP binding site [chemical binding]; other site 544556005100 Mg2+ binding site [ion binding]; other site 544556005101 G-X-G motif; other site 544556005102 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 544556005103 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 544556005104 DNA binding site [nucleotide binding] 544556005105 active site 544556005106 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 544556005107 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 544556005108 TM-ABC transporter signature motif; other site 544556005109 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 544556005110 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 544556005111 Walker A/P-loop; other site 544556005112 ATP binding site [chemical binding]; other site 544556005113 Q-loop/lid; other site 544556005114 ABC transporter signature motif; other site 544556005115 Walker B; other site 544556005116 D-loop; other site 544556005117 H-loop/switch region; other site 544556005118 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 544556005119 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 544556005120 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 544556005121 putative ligand binding site [chemical binding]; other site 544556005122 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 544556005123 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 544556005124 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 544556005125 Phosphotransferase enzyme family; Region: APH; pfam01636 544556005126 Predicted amidohydrolase [General function prediction only]; Region: COG0388 544556005127 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 544556005128 putative active site [active] 544556005129 catalytic triad [active] 544556005130 putative dimer interface [polypeptide binding]; other site 544556005131 transaminase; Reviewed; Region: PRK08068 544556005132 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 544556005133 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556005134 homodimer interface [polypeptide binding]; other site 544556005135 catalytic residue [active] 544556005136 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 544556005137 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: RLP_DK-MTP-1-P-enolase; cd08209 544556005138 dimer interface [polypeptide binding]; other site 544556005139 active site 544556005140 catalytic residue [active] 544556005141 metal binding site [ion binding]; metal-binding site 544556005142 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 544556005143 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 544556005144 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 544556005145 motif II; other site 544556005146 methylthioribulose-1-phosphate dehydratase; Reviewed; Region: mtnB; PRK06754 544556005147 intersubunit interface [polypeptide binding]; other site 544556005148 active site 544556005149 Zn2+ binding site [ion binding]; other site 544556005150 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 544556005151 Cupin domain; Region: Cupin_2; cl17218 544556005152 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 544556005153 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 544556005154 MarR family; Region: MarR; pfam01047 544556005155 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 544556005156 Propanediol utilisation protein PduL; Region: PduL; pfam06130 544556005157 Propanediol utilisation protein PduL; Region: PduL; pfam06130 544556005158 short chain dehydrogenase; Provisional; Region: PRK08309 544556005159 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 544556005160 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 544556005161 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 544556005162 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 544556005163 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 544556005164 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 544556005165 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 544556005166 active site 544556005167 Zn binding site [ion binding]; other site 544556005168 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 544556005169 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 544556005170 Coenzyme A binding pocket [chemical binding]; other site 544556005171 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 544556005172 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 544556005173 Walker A/P-loop; other site 544556005174 ATP binding site [chemical binding]; other site 544556005175 Q-loop/lid; other site 544556005176 ABC transporter signature motif; other site 544556005177 Walker B; other site 544556005178 D-loop; other site 544556005179 H-loop/switch region; other site 544556005180 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 544556005181 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 544556005182 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 544556005183 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 544556005184 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 544556005185 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 544556005186 active site 544556005187 NTP binding site [chemical binding]; other site 544556005188 metal binding triad [ion binding]; metal-binding site 544556005189 antibiotic binding site [chemical binding]; other site 544556005190 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 544556005191 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 544556005192 Walker A motif; other site 544556005193 ATP binding site [chemical binding]; other site 544556005194 Walker B motif; other site 544556005195 arginine finger; other site 544556005196 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 544556005197 Walker A motif; other site 544556005198 ATP binding site [chemical binding]; other site 544556005199 Walker B motif; other site 544556005200 arginine finger; other site 544556005201 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 544556005202 YtkA-like; Region: YtkA; pfam13115 544556005203 YtkA-like; Region: YtkA; pfam13115 544556005204 Uncharacterized membrane protein [Function unknown]; Region: COG3949 544556005205 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 544556005206 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 544556005207 dimer interface [polypeptide binding]; other site 544556005208 putative CheW interface [polypeptide binding]; other site 544556005209 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 544556005210 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 544556005211 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 544556005212 Spore germination protein; Region: Spore_permease; pfam03845 544556005213 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 544556005214 Ligand Binding Site [chemical binding]; other site 544556005215 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 544556005216 active site 544556005217 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 544556005218 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 544556005219 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 544556005220 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 544556005221 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 544556005222 NAD binding site [chemical binding]; other site 544556005223 active site 544556005224 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; pfam09953 544556005225 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 544556005226 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556005227 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 544556005228 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 544556005229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 544556005230 NAD(P) binding site [chemical binding]; other site 544556005231 active site 544556005232 YueH-like protein; Region: YueH; pfam14166 544556005233 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 544556005234 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 544556005235 putative active site [active] 544556005236 heme pocket [chemical binding]; other site 544556005237 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 544556005238 dimer interface [polypeptide binding]; other site 544556005239 phosphorylation site [posttranslational modification] 544556005240 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 544556005241 ATP binding site [chemical binding]; other site 544556005242 Mg2+ binding site [ion binding]; other site 544556005243 G-X-G motif; other site 544556005244 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 544556005245 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 544556005246 transcriptional antiterminator BglG; Provisional; Region: PRK09772 544556005247 CAT RNA binding domain; Region: CAT_RBD; smart01061 544556005248 PRD domain; Region: PRD; pfam00874 544556005249 PRD domain; Region: PRD; pfam00874 544556005250 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 544556005251 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 544556005252 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 544556005253 active site turn [active] 544556005254 phosphorylation site [posttranslational modification] 544556005255 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 544556005256 HPr interaction site; other site 544556005257 glycerol kinase (GK) interaction site [polypeptide binding]; other site 544556005258 active site 544556005259 phosphorylation site [posttranslational modification] 544556005260 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 544556005261 dimerization domain swap beta strand [polypeptide binding]; other site 544556005262 regulatory protein interface [polypeptide binding]; other site 544556005263 active site 544556005264 regulatory phosphorylation site [posttranslational modification]; other site 544556005265 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 544556005266 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 544556005267 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 544556005268 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 544556005269 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 544556005270 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 544556005271 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 544556005272 Coenzyme A binding pocket [chemical binding]; other site 544556005273 Cache domain; Region: Cache_1; pfam02743 544556005274 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 544556005275 dimerization interface [polypeptide binding]; other site 544556005276 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 544556005277 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 544556005278 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 544556005279 dimer interface [polypeptide binding]; other site 544556005280 putative CheW interface [polypeptide binding]; other site 544556005281 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 544556005282 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 544556005283 TPP-binding site [chemical binding]; other site 544556005284 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 544556005285 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 544556005286 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 544556005287 E3 interaction surface; other site 544556005288 lipoyl attachment site [posttranslational modification]; other site 544556005289 e3 binding domain; Region: E3_binding; pfam02817 544556005290 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 544556005291 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 544556005292 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 544556005293 putative NAD(P) binding site [chemical binding]; other site 544556005294 putative active site [active] 544556005295 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 544556005296 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 544556005297 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 544556005298 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 544556005299 FAD binding site [chemical binding]; other site 544556005300 substrate binding site [chemical binding]; other site 544556005301 catalytic base [active] 544556005302 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 544556005303 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 544556005304 NAD(P) binding site [chemical binding]; other site 544556005305 active site 544556005306 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 544556005307 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 544556005308 acyl-activating enzyme (AAE) consensus motif; other site 544556005309 putative AMP binding site [chemical binding]; other site 544556005310 putative active site [active] 544556005311 putative CoA binding site [chemical binding]; other site 544556005312 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 544556005313 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 544556005314 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily 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: ACAD10_11_like; cd05154 544556005315 Phosphotransferase enzyme family; Region: APH; pfam01636 544556005316 putative active site [active] 544556005317 putative substrate binding site [chemical binding]; other site 544556005318 ATP binding site [chemical binding]; other site 544556005319 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 544556005320 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 544556005321 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 544556005322 NAD(P) binding site [chemical binding]; other site 544556005323 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 544556005324 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556005325 aminotransferase A; Validated; Region: PRK07683 544556005326 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 544556005327 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556005328 homodimer interface [polypeptide binding]; other site 544556005329 catalytic residue [active] 544556005330 A short protein domain of unknown function; Region: IDEAL; smart00914 544556005331 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 544556005332 Uncharacterized bacterial subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u2; cd12831 544556005333 oligomer interface [polypeptide binding]; other site 544556005334 metal binding site [ion binding]; metal-binding site 544556005335 metal binding site [ion binding]; metal-binding site 544556005336 putative Cl binding site [ion binding]; other site 544556005337 aspartate ring; other site 544556005338 basic sphincter; other site 544556005339 hydrophobic gate; other site 544556005340 periplasmic entrance; other site 544556005341 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 544556005342 active site 544556005343 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 544556005344 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 544556005345 metal binding site [ion binding]; metal-binding site 544556005346 active site 544556005347 I-site; other site 544556005348 Response regulator receiver domain; Region: Response_reg; pfam00072 544556005349 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 544556005350 active site 544556005351 phosphorylation site [posttranslational modification] 544556005352 intermolecular recognition site; other site 544556005353 dimerization interface [polypeptide binding]; other site 544556005354 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 544556005355 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 544556005356 DXD motif; other site 544556005357 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 544556005358 YkyB-like protein; Region: YkyB; pfam14177 544556005359 phosphodiesterase YaeI; Provisional; Region: PRK11340 544556005360 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 544556005361 putative active site [active] 544556005362 putative metal binding site [ion binding]; other site 544556005363 short chain dehydrogenase; Provisional; Region: PRK07677 544556005364 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 544556005365 NAD(P) binding site [chemical binding]; other site 544556005366 substrate binding site [chemical binding]; other site 544556005367 homotetramer interface [polypeptide binding]; other site 544556005368 active site 544556005369 homodimer interface [polypeptide binding]; other site 544556005370 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 544556005371 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 544556005372 Antirepressor AbbA; Region: AbbA_antirepres; pfam14156 544556005373 FOG: CBS domain [General function prediction only]; Region: COG0517 544556005374 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 544556005375 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 544556005376 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 544556005377 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 544556005378 active site 544556005379 trimer interface [polypeptide binding]; other site 544556005380 substrate binding site [chemical binding]; other site 544556005381 CoA binding site [chemical binding]; other site 544556005382 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 544556005383 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 544556005384 metal binding site [ion binding]; metal-binding site 544556005385 putative dimer interface [polypeptide binding]; other site 544556005386 hypothetical protein; Provisional; Region: PRK03094 544556005387 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 544556005388 TrkA-N domain; Region: TrkA_N; pfam02254 544556005389 TrkA-C domain; Region: TrkA_C; pfam02080 544556005390 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 544556005391 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 544556005392 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 544556005393 hypothetical protein; Provisional; Region: PRK13667 544556005394 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 544556005395 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 544556005396 active site 544556005397 motif I; other site 544556005398 motif II; other site 544556005399 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 544556005400 motif II; other site 544556005401 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 544556005402 active site 544556005403 catalytic residues [active] 544556005404 metal binding site [ion binding]; metal-binding site 544556005405 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 544556005406 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 544556005407 TPP-binding site [chemical binding]; other site 544556005408 tetramer interface [polypeptide binding]; other site 544556005409 heterodimer interface [polypeptide binding]; other site 544556005410 phosphorylation loop region [posttranslational modification] 544556005411 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 544556005412 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 544556005413 alpha subunit interface [polypeptide binding]; other site 544556005414 TPP binding site [chemical binding]; other site 544556005415 heterodimer interface [polypeptide binding]; other site 544556005416 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 544556005417 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 544556005418 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 544556005419 E3 interaction surface; other site 544556005420 lipoyl attachment site [posttranslational modification]; other site 544556005421 e3 binding domain; Region: E3_binding; pfam02817 544556005422 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 544556005423 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 544556005424 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 544556005425 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 544556005426 Domain of unknown function (DUF1885); Region: DUF1885; pfam08968 544556005427 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 544556005428 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 544556005429 homodimer interface [polypeptide binding]; other site 544556005430 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556005431 catalytic residue [active] 544556005432 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 544556005433 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 544556005434 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 544556005435 FMN binding site [chemical binding]; other site 544556005436 substrate binding site [chemical binding]; other site 544556005437 putative catalytic residue [active] 544556005438 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 544556005439 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 544556005440 active site 544556005441 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 544556005442 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 544556005443 G1 box; other site 544556005444 putative GEF interaction site [polypeptide binding]; other site 544556005445 GTP/Mg2+ binding site [chemical binding]; other site 544556005446 Switch I region; other site 544556005447 G2 box; other site 544556005448 G3 box; other site 544556005449 Switch II region; other site 544556005450 G4 box; other site 544556005451 G5 box; other site 544556005452 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 544556005453 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 544556005454 YlaH-like protein; Region: YlaH; pfam14036 544556005455 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; pfam09963 544556005456 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 544556005457 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 544556005458 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 544556005459 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 544556005460 putative active site [active] 544556005461 PhoH-like protein; Region: PhoH; pfam02562 544556005462 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 544556005463 hypothetical protein; Provisional; Region: PRK13666 544556005464 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 544556005465 pyruvate carboxylase; Reviewed; Region: PRK12999 544556005466 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 544556005467 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 544556005468 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 544556005469 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 544556005470 active site 544556005471 catalytic residues [active] 544556005472 metal binding site [ion binding]; metal-binding site 544556005473 homodimer binding site [polypeptide binding]; other site 544556005474 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 544556005475 carboxyltransferase (CT) interaction site; other site 544556005476 biotinylation site [posttranslational modification]; other site 544556005477 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 544556005478 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 544556005479 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 544556005480 UbiA prenyltransferase family; Region: UbiA; pfam01040 544556005481 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 544556005482 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 544556005483 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 544556005484 Cytochrome c; Region: Cytochrom_C; pfam00034 544556005485 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 544556005486 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 544556005487 D-pathway; other site 544556005488 Putative ubiquinol binding site [chemical binding]; other site 544556005489 Low-spin heme (heme b) binding site [chemical binding]; other site 544556005490 Putative water exit pathway; other site 544556005491 Binuclear center (heme o3/CuB) [ion binding]; other site 544556005492 K-pathway; other site 544556005493 Putative proton exit pathway; other site 544556005494 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 544556005495 Subunit I/III interface [polypeptide binding]; other site 544556005496 Subunit III/IV interface [polypeptide binding]; other site 544556005497 cytochrome c oxidase, subunit IVB; Region: CoxD_Bacillus; TIGR02908 544556005498 cytochrome c oxidase assembly factor CtaG; Region: caa3_CtaG; TIGR02737 544556005499 Protein of unknown function (DUF420); Region: DUF420; pfam04238 544556005500 Asp23 family; Region: Asp23; cl00574 544556005501 YugN-like family; Region: YugN; pfam08868 544556005502 FOG: CBS domain [General function prediction only]; Region: COG0517 544556005503 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 544556005504 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 544556005505 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 544556005506 Putative coat protein; Region: YlbD_coat; pfam14071 544556005507 YlbE-like protein; Region: YlbE; pfam14003 544556005508 Protein of unknown function (DUF964); Region: DUF964; pfam06133 544556005509 hypothetical protein; Provisional; Region: PRK02886 544556005510 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 544556005511 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 544556005512 S-adenosylmethionine binding site [chemical binding]; other site 544556005513 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 544556005514 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 544556005515 active site 544556005516 (T/H)XGH motif; other site 544556005517 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 544556005518 Nucleoside recognition; Region: Gate; pfam07670 544556005519 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 544556005520 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 544556005521 active site 544556005522 nucleophile elbow; other site 544556005523 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 544556005524 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 544556005525 protein binding site [polypeptide binding]; other site 544556005526 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 544556005527 hypothetical protein; Provisional; Region: PRK13670 544556005528 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 544556005529 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 544556005530 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 544556005531 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 544556005532 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 544556005533 substrate binding site [chemical binding]; other site 544556005534 oxyanion hole (OAH) forming residues; other site 544556005535 trimer interface [polypeptide binding]; other site 544556005536 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 544556005537 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 544556005538 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 544556005539 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 544556005540 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 544556005541 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 544556005542 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 544556005543 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 544556005544 MraW methylase family; Region: Methyltransf_5; pfam01795 544556005545 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 544556005546 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 544556005547 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 544556005548 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 544556005549 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 544556005550 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 544556005551 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 544556005552 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 544556005553 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 544556005554 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 544556005555 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 544556005556 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 544556005557 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 544556005558 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 544556005559 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 544556005560 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 544556005561 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 544556005562 Mg++ binding site [ion binding]; other site 544556005563 putative catalytic motif [active] 544556005564 putative substrate binding site [chemical binding]; other site 544556005565 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 544556005566 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 544556005567 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 544556005568 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 544556005569 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 544556005570 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 544556005571 Cell division protein FtsQ; Region: FtsQ; pfam03799 544556005572 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 544556005573 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 544556005574 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 544556005575 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 544556005576 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 544556005577 nucleotide binding site [chemical binding]; other site 544556005578 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 544556005579 Cell division protein FtsA; Region: FtsA; pfam14450 544556005580 cell division protein FtsZ; Validated; Region: PRK09330 544556005581 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 544556005582 nucleotide binding site [chemical binding]; other site 544556005583 SulA interaction site; other site 544556005584 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 544556005585 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 544556005586 sporulation sigma factor SigE; Reviewed; Region: PRK08301 544556005587 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 544556005588 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 544556005589 DNA binding residues [nucleotide binding] 544556005590 sporulation sigma factor SigG; Reviewed; Region: PRK08215 544556005591 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 544556005592 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 544556005593 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 544556005594 DNA binding residues [nucleotide binding] 544556005595 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 544556005596 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 544556005597 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 544556005598 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 544556005599 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 544556005600 catalytic residue [active] 544556005601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 544556005602 YGGT family; Region: YGGT; pfam02325 544556005603 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 544556005604 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 544556005605 RNA binding surface [nucleotide binding]; other site 544556005606 DivIVA protein; Region: DivIVA; pfam05103 544556005607 DivIVA domain; Region: DivI1A_domain; TIGR03544 544556005608 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 544556005609 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 544556005610 HIGH motif; other site 544556005611 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 544556005612 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 544556005613 active site 544556005614 KMSKS motif; other site 544556005615 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 544556005616 tRNA binding surface [nucleotide binding]; other site 544556005617 anticodon binding site; other site 544556005618 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 544556005619 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 544556005620 lipoprotein signal peptidase; Provisional; Region: PRK14787 544556005621 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 544556005622 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 544556005623 RNA binding surface [nucleotide binding]; other site 544556005624 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 544556005625 active site 544556005626 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 544556005627 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 544556005628 active site 544556005629 uracil-xanthine permease; Region: ncs2; TIGR00801 544556005630 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 544556005631 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 544556005632 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 544556005633 dihydroorotase; Validated; Region: pyrC; PRK09357 544556005634 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 544556005635 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 544556005636 active site 544556005637 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 544556005638 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 544556005639 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 544556005640 catalytic site [active] 544556005641 subunit interface [polypeptide binding]; other site 544556005642 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 544556005643 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 544556005644 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 544556005645 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 544556005646 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 544556005647 ATP-grasp domain; Region: ATP-grasp_4; cl17255 544556005648 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 544556005649 IMP binding site; other site 544556005650 dimer interface [polypeptide binding]; other site 544556005651 interdomain contacts; other site 544556005652 partial ornithine binding site; other site 544556005653 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 544556005654 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 544556005655 FAD binding pocket [chemical binding]; other site 544556005656 FAD binding motif [chemical binding]; other site 544556005657 phosphate binding motif [ion binding]; other site 544556005658 beta-alpha-beta structure motif; other site 544556005659 NAD binding pocket [chemical binding]; other site 544556005660 Iron coordination center [ion binding]; other site 544556005661 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 544556005662 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 544556005663 heterodimer interface [polypeptide binding]; other site 544556005664 active site 544556005665 FMN binding site [chemical binding]; other site 544556005666 homodimer interface [polypeptide binding]; other site 544556005667 substrate binding site [chemical binding]; other site 544556005668 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 544556005669 active site 544556005670 dimer interface [polypeptide binding]; other site 544556005671 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 544556005672 active site 544556005673 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 544556005674 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556005675 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 544556005676 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556005677 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556005678 Protein of unknown function, DUF482; Region: DUF482; pfam04339 544556005679 hypothetical protein; Provisional; Region: PRK07206 544556005680 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 544556005681 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 544556005682 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 544556005683 Coenzyme A binding pocket [chemical binding]; other site 544556005684 H+ Antiporter protein; Region: 2A0121; TIGR00900 544556005685 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 544556005686 beta-phosphoglucomutase; Region: bPGM; TIGR01990 544556005687 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 544556005688 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 544556005689 RHS Repeat; Region: RHS_repeat; pfam05593 544556005690 RHS Repeat; Region: RHS_repeat; cl11982 544556005691 RHS protein; Region: RHS; pfam03527 544556005692 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 544556005693 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 544556005694 putative active site [active] 544556005695 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 544556005696 putative active site [active] 544556005697 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 544556005698 Domain of unknown function (DUF814); Region: DUF814; pfam05670 544556005699 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 544556005700 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 544556005701 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 544556005702 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 544556005703 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 544556005704 motif II; other site 544556005705 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 544556005706 hypothetical protein; Provisional; Region: PRK11820 544556005707 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 544556005708 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 544556005709 hypothetical protein; Provisional; Region: PRK04323 544556005710 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 544556005711 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 544556005712 catalytic site [active] 544556005713 G-X2-G-X-G-K; other site 544556005714 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 544556005715 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 544556005716 Flavoprotein; Region: Flavoprotein; pfam02441 544556005717 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 544556005718 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 544556005719 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 544556005720 ATP binding site [chemical binding]; other site 544556005721 putative Mg++ binding site [ion binding]; other site 544556005722 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 544556005723 nucleotide binding region [chemical binding]; other site 544556005724 ATP-binding site [chemical binding]; other site 544556005725 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 544556005726 active site 544556005727 catalytic residues [active] 544556005728 metal binding site [ion binding]; metal-binding site 544556005729 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 544556005730 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 544556005731 putative active site [active] 544556005732 substrate binding site [chemical binding]; other site 544556005733 putative cosubstrate binding site; other site 544556005734 catalytic site [active] 544556005735 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 544556005736 substrate binding site [chemical binding]; other site 544556005737 16S rRNA methyltransferase B; Provisional; Region: PRK14902 544556005738 NusB family; Region: NusB; pfam01029 544556005739 putative RNA binding site [nucleotide binding]; other site 544556005740 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 544556005741 S-adenosylmethionine binding site [chemical binding]; other site 544556005742 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 544556005743 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 544556005744 FeS/SAM binding site; other site 544556005745 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 544556005746 Protein phosphatase 2C; Region: PP2C; pfam00481 544556005747 active site 544556005748 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 544556005749 Catalytic domain of Protein Kinases; Region: PKc; cd00180 544556005750 active site 544556005751 ATP binding site [chemical binding]; other site 544556005752 substrate binding site [chemical binding]; other site 544556005753 activation loop (A-loop); other site 544556005754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 544556005755 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 544556005756 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 544556005757 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 544556005758 GTPase RsgA; Reviewed; Region: PRK00098 544556005759 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 544556005760 RNA binding site [nucleotide binding]; other site 544556005761 homodimer interface [polypeptide binding]; other site 544556005762 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 544556005763 GTPase/Zn-binding domain interface [polypeptide binding]; other site 544556005764 GTP/Mg2+ binding site [chemical binding]; other site 544556005765 G4 box; other site 544556005766 G5 box; other site 544556005767 G1 box; other site 544556005768 Switch I region; other site 544556005769 G2 box; other site 544556005770 G3 box; other site 544556005771 Switch II region; other site 544556005772 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 544556005773 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 544556005774 substrate binding site [chemical binding]; other site 544556005775 hexamer interface [polypeptide binding]; other site 544556005776 metal binding site [ion binding]; metal-binding site 544556005777 Thiamine pyrophosphokinase; Region: TPK; cd07995 544556005778 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 544556005779 active site 544556005780 dimerization interface [polypeptide binding]; other site 544556005781 thiamine binding site [chemical binding]; other site 544556005782 stage V sporulation protein M; Provisional; Region: spoVM; PRK14741 544556005783 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 544556005784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 544556005785 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 544556005786 DAK2 domain; Region: Dak2; pfam02734 544556005787 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 544556005788 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 544556005789 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 544556005790 putative L-serine binding site [chemical binding]; other site 544556005791 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 544556005792 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 544556005793 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 544556005794 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 544556005795 generic binding surface II; other site 544556005796 ssDNA binding site; other site 544556005797 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 544556005798 ATP binding site [chemical binding]; other site 544556005799 putative Mg++ binding site [ion binding]; other site 544556005800 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 544556005801 nucleotide binding region [chemical binding]; other site 544556005802 ATP-binding site [chemical binding]; other site 544556005803 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 544556005804 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 544556005805 active site 2 [active] 544556005806 active site 1 [active] 544556005807 putative phosphate acyltransferase; Provisional; Region: PRK05331 544556005808 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 544556005809 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 544556005810 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 544556005811 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 544556005812 NAD(P) binding site [chemical binding]; other site 544556005813 homotetramer interface [polypeptide binding]; other site 544556005814 homodimer interface [polypeptide binding]; other site 544556005815 active site 544556005816 acyl carrier protein; Provisional; Region: acpP; PRK00982 544556005817 ribonuclease III; Reviewed; Region: rnc; PRK00102 544556005818 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 544556005819 dimerization interface [polypeptide binding]; other site 544556005820 active site 544556005821 metal binding site [ion binding]; metal-binding site 544556005822 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 544556005823 dsRNA binding site [nucleotide binding]; other site 544556005824 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 544556005825 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 544556005826 Walker A/P-loop; other site 544556005827 ATP binding site [chemical binding]; other site 544556005828 Q-loop/lid; other site 544556005829 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 544556005830 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 544556005831 ABC transporter signature motif; other site 544556005832 Walker B; other site 544556005833 D-loop; other site 544556005834 H-loop/switch region; other site 544556005835 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 544556005836 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 544556005837 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 544556005838 P loop; other site 544556005839 GTP binding site [chemical binding]; other site 544556005840 putative DNA-binding protein; Validated; Region: PRK00118 544556005841 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 544556005842 signal recognition particle protein; Provisional; Region: PRK10867 544556005843 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 544556005844 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 544556005845 P loop; other site 544556005846 GTP binding site [chemical binding]; other site 544556005847 Signal peptide binding domain; Region: SRP_SPB; pfam02978 544556005848 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 544556005849 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 544556005850 KH domain; Region: KH_4; pfam13083 544556005851 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 544556005852 Probable transposase; Region: OrfB_IS605; pfam01385 544556005853 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 544556005854 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 544556005855 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 544556005856 RimM N-terminal domain; Region: RimM; pfam01782 544556005857 PRC-barrel domain; Region: PRC; pfam05239 544556005858 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 544556005859 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 544556005860 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 544556005861 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 544556005862 Catalytic site [active] 544556005863 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 544556005864 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 544556005865 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 544556005866 GTP/Mg2+ binding site [chemical binding]; other site 544556005867 G4 box; other site 544556005868 G5 box; other site 544556005869 G1 box; other site 544556005870 Switch I region; other site 544556005871 G2 box; other site 544556005872 G3 box; other site 544556005873 Switch II region; other site 544556005874 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 544556005875 RNA/DNA hybrid binding site [nucleotide binding]; other site 544556005876 active site 544556005877 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 544556005878 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 544556005879 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 544556005880 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 544556005881 CoA-ligase; Region: Ligase_CoA; pfam00549 544556005882 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 544556005883 CoA binding domain; Region: CoA_binding; pfam02629 544556005884 CoA-ligase; Region: Ligase_CoA; pfam00549 544556005885 DNA protecting protein DprA; Region: dprA; TIGR00732 544556005886 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 544556005887 DNA topoisomerase I; Validated; Region: PRK05582 544556005888 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 544556005889 active site 544556005890 interdomain interaction site; other site 544556005891 putative metal-binding site [ion binding]; other site 544556005892 nucleotide binding site [chemical binding]; other site 544556005893 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 544556005894 domain I; other site 544556005895 DNA binding groove [nucleotide binding] 544556005896 phosphate binding site [ion binding]; other site 544556005897 domain II; other site 544556005898 domain III; other site 544556005899 nucleotide binding site [chemical binding]; other site 544556005900 catalytic site [active] 544556005901 domain IV; other site 544556005902 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 544556005903 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 544556005904 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 544556005905 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 544556005906 active site 544556005907 Int/Topo IB signature motif; other site 544556005908 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 544556005909 active site 544556005910 HslU subunit interaction site [polypeptide binding]; other site 544556005911 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 544556005912 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 544556005913 Walker A motif; other site 544556005914 ATP binding site [chemical binding]; other site 544556005915 Walker B motif; other site 544556005916 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 544556005917 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 544556005918 transcriptional repressor CodY; Validated; Region: PRK04158 544556005919 CodY GAF-like domain; Region: CodY; pfam06018 544556005920 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 544556005921 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 544556005922 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 544556005923 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 544556005924 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 544556005925 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 544556005926 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 544556005927 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 544556005928 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 544556005929 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 544556005930 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 544556005931 MgtE intracellular N domain; Region: MgtE_N; cl15244 544556005932 FliG C-terminal domain; Region: FliG_C; pfam01706 544556005933 flagellar assembly protein FliH; Region: FliH_bacil; TIGR03825 544556005934 Flagellar assembly protein FliH; Region: FliH; pfam02108 544556005935 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07721 544556005936 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 544556005937 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 544556005938 Walker A motif/ATP binding site; other site 544556005939 Walker B motif; other site 544556005940 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 544556005941 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 544556005942 MgtE intracellular N domain; Region: MgtE_N; cl15244 544556005943 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 544556005944 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 544556005945 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 544556005946 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 544556005947 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 544556005948 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 544556005949 Flagellar protein (FlbD); Region: FlbD; pfam06289 544556005950 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 544556005951 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 544556005952 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 544556005953 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 544556005954 flagellar motor switch protein; Validated; Region: PRK08119 544556005955 CheC-like family; Region: CheC; pfam04509 544556005956 CheC-like family; Region: CheC; pfam04509 544556005957 flagellar motor switch protein FliN; Region: fliN; TIGR02480 544556005958 Response regulator receiver domain; Region: Response_reg; pfam00072 544556005959 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 544556005960 active site 544556005961 phosphorylation site [posttranslational modification] 544556005962 intermolecular recognition site; other site 544556005963 dimerization interface [polypeptide binding]; other site 544556005964 flagella biosynthesis protein FliZ; Provisional; Region: PRK13415 544556005965 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 544556005966 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 544556005967 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 544556005968 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 544556005969 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 544556005970 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 544556005971 FHIPEP family; Region: FHIPEP; pfam00771 544556005972 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 544556005973 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 544556005974 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 544556005975 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 544556005976 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 544556005977 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 544556005978 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 544556005979 active site 544556005980 phosphorylation site [posttranslational modification] 544556005981 intermolecular recognition site; other site 544556005982 dimerization interface [polypeptide binding]; other site 544556005983 CheB methylesterase; Region: CheB_methylest; pfam01339 544556005984 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 544556005985 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 544556005986 putative binding surface; other site 544556005987 active site 544556005988 P2 response regulator binding domain; Region: P2; pfam07194 544556005989 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 544556005990 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 544556005991 ATP binding site [chemical binding]; other site 544556005992 Mg2+ binding site [ion binding]; other site 544556005993 G-X-G motif; other site 544556005994 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 544556005995 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 544556005996 putative CheA interaction surface; other site 544556005997 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 544556005998 Chemotaxis phosphatase CheX; Region: CheX; cl15816 544556005999 CheC-like family; Region: CheC; pfam04509 544556006000 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 544556006001 RNA polymerase sigma factor SigD; Validated; Region: PRK07670 544556006002 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 544556006003 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 544556006004 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 544556006005 DNA binding residues [nucleotide binding] 544556006006 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 544556006007 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 544556006008 rRNA interaction site [nucleotide binding]; other site 544556006009 S8 interaction site; other site 544556006010 putative laminin-1 binding site; other site 544556006011 elongation factor Ts; Provisional; Region: tsf; PRK09377 544556006012 UBA/TS-N domain; Region: UBA; pfam00627 544556006013 Elongation factor TS; Region: EF_TS; pfam00889 544556006014 Elongation factor TS; Region: EF_TS; pfam00889 544556006015 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 544556006016 putative nucleotide binding site [chemical binding]; other site 544556006017 uridine monophosphate binding site [chemical binding]; other site 544556006018 homohexameric interface [polypeptide binding]; other site 544556006019 ribosome recycling factor; Reviewed; Region: frr; PRK00083 544556006020 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 544556006021 hinge region; other site 544556006022 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 544556006023 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 544556006024 catalytic residue [active] 544556006025 putative FPP diphosphate binding site; other site 544556006026 putative FPP binding hydrophobic cleft; other site 544556006027 dimer interface [polypeptide binding]; other site 544556006028 putative IPP diphosphate binding site; other site 544556006029 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 544556006030 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 544556006031 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 544556006032 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 544556006033 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 544556006034 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 544556006035 RIP metalloprotease RseP; Region: TIGR00054 544556006036 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 544556006037 active site 544556006038 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 544556006039 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 544556006040 protein binding site [polypeptide binding]; other site 544556006041 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 544556006042 putative substrate binding region [chemical binding]; other site 544556006043 prolyl-tRNA synthetase; Provisional; Region: PRK09194 544556006044 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 544556006045 dimer interface [polypeptide binding]; other site 544556006046 motif 1; other site 544556006047 active site 544556006048 motif 2; other site 544556006049 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 544556006050 putative deacylase active site [active] 544556006051 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 544556006052 active site 544556006053 motif 3; other site 544556006054 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 544556006055 anticodon binding site; other site 544556006056 DNA polymerase III PolC; Validated; Region: polC; PRK00448 544556006057 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 544556006058 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 544556006059 generic binding surface I; other site 544556006060 generic binding surface II; other site 544556006061 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 544556006062 active site 544556006063 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 544556006064 active site 544556006065 catalytic site [active] 544556006066 substrate binding site [chemical binding]; other site 544556006067 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 544556006068 ribosome maturation protein RimP; Reviewed; Region: PRK00092 544556006069 Sm and related proteins; Region: Sm_like; cl00259 544556006070 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 544556006071 putative oligomer interface [polypeptide binding]; other site 544556006072 putative RNA binding site [nucleotide binding]; other site 544556006073 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 544556006074 NusA N-terminal domain; Region: NusA_N; pfam08529 544556006075 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 544556006076 RNA binding site [nucleotide binding]; other site 544556006077 homodimer interface [polypeptide binding]; other site 544556006078 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 544556006079 G-X-X-G motif; other site 544556006080 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 544556006081 G-X-X-G motif; other site 544556006082 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 544556006083 putative RNA binding cleft [nucleotide binding]; other site 544556006084 hypothetical protein; Provisional; Region: PRK07714 544556006085 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 544556006086 translation initiation factor IF-2; Region: IF-2; TIGR00487 544556006087 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 544556006088 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 544556006089 G1 box; other site 544556006090 putative GEF interaction site [polypeptide binding]; other site 544556006091 GTP/Mg2+ binding site [chemical binding]; other site 544556006092 Switch I region; other site 544556006093 G2 box; other site 544556006094 G3 box; other site 544556006095 Switch II region; other site 544556006096 G4 box; other site 544556006097 G5 box; other site 544556006098 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 544556006099 Translation-initiation factor 2; Region: IF-2; pfam11987 544556006100 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 544556006101 Protein of unknown function (DUF503); Region: DUF503; pfam04456 544556006102 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 544556006103 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 544556006104 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 544556006105 RNA binding site [nucleotide binding]; other site 544556006106 active site 544556006107 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 544556006108 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 544556006109 active site 544556006110 Riboflavin kinase; Region: Flavokinase; smart00904 544556006111 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 544556006112 16S/18S rRNA binding site [nucleotide binding]; other site 544556006113 S13e-L30e interaction site [polypeptide binding]; other site 544556006114 25S rRNA binding site [nucleotide binding]; other site 544556006115 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 544556006116 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 544556006117 RNase E interface [polypeptide binding]; other site 544556006118 trimer interface [polypeptide binding]; other site 544556006119 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 544556006120 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 544556006121 RNase E interface [polypeptide binding]; other site 544556006122 trimer interface [polypeptide binding]; other site 544556006123 active site 544556006124 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 544556006125 putative nucleic acid binding region [nucleotide binding]; other site 544556006126 G-X-X-G motif; other site 544556006127 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 544556006128 RNA binding site [nucleotide binding]; other site 544556006129 domain interface; other site 544556006130 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556006131 Transposase; Region: DEDD_Tnp_IS110; pfam01548 544556006132 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 544556006133 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556006134 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 544556006135 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 544556006136 NodB motif; other site 544556006137 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 544556006138 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 544556006139 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 544556006140 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 544556006141 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 544556006142 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 544556006143 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 544556006144 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 544556006145 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 544556006146 aspartate kinase I; Reviewed; Region: PRK08210 544556006147 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 544556006148 nucleotide binding site [chemical binding]; other site 544556006149 substrate binding site [chemical binding]; other site 544556006150 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 544556006151 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 544556006152 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 544556006153 dihydrodipicolinate synthase; Region: dapA; TIGR00674 544556006154 dimer interface [polypeptide binding]; other site 544556006155 active site 544556006156 catalytic residue [active] 544556006157 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 544556006158 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 544556006159 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 544556006160 Clp protease; Region: CLP_protease; pfam00574 544556006161 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 544556006162 active site 544556006163 YlzJ-like protein; Region: YlzJ; pfam14035 544556006164 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 544556006165 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 544556006166 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 544556006167 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 544556006168 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 544556006169 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 544556006170 DNA-binding site [nucleotide binding]; DNA binding site 544556006171 UTRA domain; Region: UTRA; pfam07702 544556006172 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 544556006173 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 544556006174 ligand binding site [chemical binding]; other site 544556006175 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 544556006176 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 544556006177 Walker A/P-loop; other site 544556006178 ATP binding site [chemical binding]; other site 544556006179 Q-loop/lid; other site 544556006180 ABC transporter signature motif; other site 544556006181 Walker B; other site 544556006182 D-loop; other site 544556006183 H-loop/switch region; other site 544556006184 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 544556006185 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 544556006186 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 544556006187 TM-ABC transporter signature motif; other site 544556006188 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 544556006189 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 544556006190 TM-ABC transporter signature motif; other site 544556006191 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 544556006192 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 544556006193 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 544556006194 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 544556006195 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 544556006196 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 544556006197 classical (c) SDRs; Region: SDR_c; cd05233 544556006198 NAD(P) binding site [chemical binding]; other site 544556006199 active site 544556006200 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 544556006201 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556006202 Transposase; Region: DEDD_Tnp_IS110; pfam01548 544556006203 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 544556006204 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556006205 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 544556006206 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 544556006207 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 544556006208 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 544556006209 non-specific DNA binding site [nucleotide binding]; other site 544556006210 salt bridge; other site 544556006211 sequence-specific DNA binding site [nucleotide binding]; other site 544556006212 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 544556006213 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 544556006214 competence damage-inducible protein A; Provisional; Region: PRK00549 544556006215 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 544556006216 putative MPT binding site; other site 544556006217 Competence-damaged protein; Region: CinA; pfam02464 544556006218 recA bacterial DNA recombination protein; Region: RecA; cl17211 544556006219 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 544556006220 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 544556006221 putative active site [active] 544556006222 putative NTP binding site [chemical binding]; other site 544556006223 putative nucleic acid binding site [nucleotide binding]; other site 544556006224 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 544556006225 active site 544556006226 recA bacterial DNA recombination protein; Region: RecA; cl17211 544556006227 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 544556006228 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 544556006229 putative active site [active] 544556006230 putative NTP binding site [chemical binding]; other site 544556006231 putative nucleic acid binding site [nucleotide binding]; other site 544556006232 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 544556006233 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 544556006234 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 544556006235 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 544556006236 Zn2+ binding site [ion binding]; other site 544556006237 Mg2+ binding site [ion binding]; other site 544556006238 Cation efflux family; Region: Cation_efflux; cl00316 544556006239 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 544556006240 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 544556006241 putative active site [active] 544556006242 metal binding site [ion binding]; metal-binding site 544556006243 homodimer binding site [polypeptide binding]; other site 544556006244 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 544556006245 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 544556006246 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 544556006247 active site 544556006248 dimer interface [polypeptide binding]; other site 544556006249 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 544556006250 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 544556006251 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 544556006252 dimer interface [polypeptide binding]; other site 544556006253 PYR/PP interface [polypeptide binding]; other site 544556006254 TPP binding site [chemical binding]; other site 544556006255 substrate binding site [chemical binding]; other site 544556006256 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 544556006257 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 544556006258 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 544556006259 TPP-binding site [chemical binding]; other site 544556006260 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 544556006261 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 544556006262 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 544556006263 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 544556006264 FeS/SAM binding site; other site 544556006265 TRAM domain; Region: TRAM; cl01282 544556006266 Predicted membrane protein [Function unknown]; Region: COG4550 544556006267 Outer spore coat protein E (CotE); Region: CotE; pfam10628 544556006268 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 544556006269 MutS domain I; Region: MutS_I; pfam01624 544556006270 MutS domain II; Region: MutS_II; pfam05188 544556006271 MutS domain III; Region: MutS_III; pfam05192 544556006272 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 544556006273 Walker A/P-loop; other site 544556006274 ATP binding site [chemical binding]; other site 544556006275 Q-loop/lid; other site 544556006276 ABC transporter signature motif; other site 544556006277 Walker B; other site 544556006278 D-loop; other site 544556006279 H-loop/switch region; other site 544556006280 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 544556006281 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 544556006282 ATP binding site [chemical binding]; other site 544556006283 Mg2+ binding site [ion binding]; other site 544556006284 G-X-G motif; other site 544556006285 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 544556006286 ATP binding site [chemical binding]; other site 544556006287 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 544556006288 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556006289 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 544556006290 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556006291 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 544556006292 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556006293 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 544556006294 NlpC/P60 family; Region: NLPC_P60; pfam00877 544556006295 BCCT family transporter; Region: BCCT; pfam02028 544556006296 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556006297 Transposase; Region: DEDD_Tnp_IS110; pfam01548 544556006298 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 544556006299 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556006300 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 544556006301 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 544556006302 putative substrate translocation pore; other site 544556006303 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 544556006304 CHASE3 domain; Region: CHASE3; cl05000 544556006305 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 544556006306 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 544556006307 dimerization interface [polypeptide binding]; other site 544556006308 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 544556006309 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 544556006310 dimer interface [polypeptide binding]; other site 544556006311 putative CheW interface [polypeptide binding]; other site 544556006312 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 544556006313 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 544556006314 bacterial Hfq-like; Region: Hfq; cd01716 544556006315 hexamer interface [polypeptide binding]; other site 544556006316 Sm1 motif; other site 544556006317 RNA binding site [nucleotide binding]; other site 544556006318 Sm2 motif; other site 544556006319 stage V sporulation protein K; Region: spore_V_K; TIGR02881 544556006320 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 544556006321 Walker A motif; other site 544556006322 ATP binding site [chemical binding]; other site 544556006323 Walker B motif; other site 544556006324 arginine finger; other site 544556006325 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 544556006326 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 544556006327 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 544556006328 acyl-activating enzyme (AAE) consensus motif; other site 544556006329 acyl-activating enzyme (AAE) consensus motif; other site 544556006330 putative AMP binding site [chemical binding]; other site 544556006331 putative active site [active] 544556006332 putative CoA binding site [chemical binding]; other site 544556006333 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 544556006334 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 544556006335 active site 544556006336 putative CoA-transferase; Provisional; Region: PRK11430 544556006337 CoA-transferase family III; Region: CoA_transf_3; pfam02515 544556006338 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 544556006339 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 544556006340 dimer interface [polypeptide binding]; other site 544556006341 acyl-activating enzyme (AAE) consensus motif; other site 544556006342 putative active site [active] 544556006343 AMP binding site [chemical binding]; other site 544556006344 putative CoA binding site [chemical binding]; other site 544556006345 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 544556006346 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 544556006347 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 544556006348 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 544556006349 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 544556006350 dimer interface [polypeptide binding]; other site 544556006351 active site 544556006352 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 544556006353 EamA-like transporter family; Region: EamA; pfam00892 544556006354 EamA-like transporter family; Region: EamA; pfam00892 544556006355 Predicted membrane protein [Function unknown]; Region: COG2860 544556006356 UPF0126 domain; Region: UPF0126; pfam03458 544556006357 UPF0126 domain; Region: UPF0126; pfam03458 544556006358 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 544556006359 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 544556006360 HflX GTPase family; Region: HflX; cd01878 544556006361 G1 box; other site 544556006362 GTP/Mg2+ binding site [chemical binding]; other site 544556006363 Switch I region; other site 544556006364 G2 box; other site 544556006365 G3 box; other site 544556006366 Switch II region; other site 544556006367 G4 box; other site 544556006368 G5 box; other site 544556006369 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 544556006370 Aluminium resistance protein; Region: Alum_res; pfam06838 544556006371 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 544556006372 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 544556006373 DNA binding residues [nucleotide binding] 544556006374 putative dimer interface [polypeptide binding]; other site 544556006375 glutamine synthetase, type I; Region: GlnA; TIGR00653 544556006376 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 544556006377 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 544556006378 LexA repressor; Validated; Region: PRK00215 544556006379 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 544556006380 putative DNA binding site [nucleotide binding]; other site 544556006381 putative Zn2+ binding site [ion binding]; other site 544556006382 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 544556006383 Catalytic site [active] 544556006384 cell division suppressor protein YneA; Provisional; Region: PRK14125 544556006385 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556006386 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 544556006387 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 544556006388 catalytic residues [active] 544556006389 catalytic nucleophile [active] 544556006390 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 544556006391 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 544556006392 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 544556006393 TPP-binding site [chemical binding]; other site 544556006394 dimer interface [polypeptide binding]; other site 544556006395 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 544556006396 PYR/PP interface [polypeptide binding]; other site 544556006397 dimer interface [polypeptide binding]; other site 544556006398 TPP binding site [chemical binding]; other site 544556006399 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 544556006400 Protein of unknown function (DUF2522); Region: DUF2522; pfam10747 544556006401 hypothetical protein; Provisional; Region: PRK01844 544556006402 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 544556006403 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 544556006404 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 544556006405 Walker A/P-loop; other site 544556006406 ATP binding site [chemical binding]; other site 544556006407 Q-loop/lid; other site 544556006408 ABC transporter signature motif; other site 544556006409 Walker B; other site 544556006410 D-loop; other site 544556006411 H-loop/switch region; other site 544556006412 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 544556006413 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 544556006414 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 544556006415 Walker A/P-loop; other site 544556006416 ATP binding site [chemical binding]; other site 544556006417 Q-loop/lid; other site 544556006418 ABC transporter signature motif; other site 544556006419 Walker B; other site 544556006420 D-loop; other site 544556006421 H-loop/switch region; other site 544556006422 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 544556006423 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 544556006424 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 544556006425 Response regulator receiver domain; Region: Response_reg; pfam00072 544556006426 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 544556006427 active site 544556006428 phosphorylation site [posttranslational modification] 544556006429 intermolecular recognition site; other site 544556006430 dimerization interface [polypeptide binding]; other site 544556006431 Protein of unknown function (DUF1453); Region: DUF1453; pfam07301 544556006432 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 544556006433 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 544556006434 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556006435 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 544556006436 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 544556006437 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 544556006438 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 544556006439 Walker A motif; other site 544556006440 ATP binding site [chemical binding]; other site 544556006441 Walker B motif; other site 544556006442 arginine finger; other site 544556006443 Transcriptional antiterminator [Transcription]; Region: COG3933 544556006444 PRD domain; Region: PRD; pfam00874 544556006445 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 544556006446 active pocket/dimerization site; other site 544556006447 active site 544556006448 phosphorylation site [posttranslational modification] 544556006449 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 544556006450 active site 544556006451 P-loop; other site 544556006452 phosphorylation site [posttranslational modification] 544556006453 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 544556006454 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 544556006455 putative active site [active] 544556006456 YdjC motif; other site 544556006457 Mg binding site [ion binding]; other site 544556006458 putative homodimer interface [polypeptide binding]; other site 544556006459 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 544556006460 methionine cluster; other site 544556006461 active site 544556006462 phosphorylation site [posttranslational modification] 544556006463 metal binding site [ion binding]; metal-binding site 544556006464 acid-soluble spore protein P; Provisional; Region: sspP; PRK09399 544556006465 acid-soluble spore protein O; Provisional; Region: sspO; PRK02984 544556006466 aconitate hydratase; Validated; Region: PRK09277 544556006467 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 544556006468 substrate binding site [chemical binding]; other site 544556006469 ligand binding site [chemical binding]; other site 544556006470 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 544556006471 substrate binding site [chemical binding]; other site 544556006472 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 544556006473 EamA-like transporter family; Region: EamA; pfam00892 544556006474 hypothetical protein; Validated; Region: PRK07708 544556006475 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 544556006476 RNA/DNA hybrid binding site [nucleotide binding]; other site 544556006477 active site 544556006478 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 544556006479 Protein of unknown function (DUF2564); Region: DUF2564; pfam10819 544556006480 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 544556006481 DNA-binding site [nucleotide binding]; DNA binding site 544556006482 RNA-binding motif; other site 544556006483 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 544556006484 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 544556006485 amphipathic channel; other site 544556006486 Asn-Pro-Ala signature motifs; other site 544556006487 glycerol kinase; Provisional; Region: glpK; PRK00047 544556006488 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 544556006489 N- and C-terminal domain interface [polypeptide binding]; other site 544556006490 active site 544556006491 MgATP binding site [chemical binding]; other site 544556006492 catalytic site [active] 544556006493 metal binding site [ion binding]; metal-binding site 544556006494 glycerol binding site [chemical binding]; other site 544556006495 homotetramer interface [polypeptide binding]; other site 544556006496 homodimer interface [polypeptide binding]; other site 544556006497 FBP binding site [chemical binding]; other site 544556006498 protein IIAGlc interface [polypeptide binding]; other site 544556006499 DDE superfamily endonuclease; Region: DDE_5; cl17874 544556006500 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556006501 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 544556006502 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 544556006503 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 544556006504 active site 544556006505 metal binding site [ion binding]; metal-binding site 544556006506 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 544556006507 CoenzymeA binding site [chemical binding]; other site 544556006508 subunit interaction site [polypeptide binding]; other site 544556006509 PHB binding site; other site 544556006510 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 544556006511 CoenzymeA binding site [chemical binding]; other site 544556006512 subunit interaction site [polypeptide binding]; other site 544556006513 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 544556006514 PHB binding site; other site 544556006515 formimidoylglutamase; Provisional; Region: PRK13775 544556006516 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 544556006517 putative active site [active] 544556006518 putative metal binding site [ion binding]; other site 544556006519 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 544556006520 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 544556006521 urocanate hydratase; Provisional; Region: PRK05414 544556006522 imidazolonepropionase; Validated; Region: PRK09356 544556006523 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 544556006524 active site 544556006525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 544556006526 Nucleoside recognition; Region: Gate; pfam07670 544556006527 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13953 544556006528 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 544556006529 Predicted transporter component [General function prediction only]; Region: COG2391 544556006530 Sulphur transport; Region: Sulf_transp; pfam04143 544556006531 Sulphur transport; Region: Sulf_transp; pfam04143 544556006532 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 544556006533 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 544556006534 substrate binding site [chemical binding]; other site 544556006535 ATP binding site [chemical binding]; other site 544556006536 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 544556006537 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 544556006538 HEAT repeats; Region: HEAT_2; pfam13646 544556006539 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 544556006540 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 544556006541 non-specific DNA binding site [nucleotide binding]; other site 544556006542 salt bridge; other site 544556006543 sequence-specific DNA binding site [nucleotide binding]; other site 544556006544 Domain of unknown function (DUF955); Region: DUF955; cl01076 544556006545 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 544556006546 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 544556006547 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 544556006548 putative active site [active] 544556006549 metal binding site [ion binding]; metal-binding site 544556006550 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 544556006551 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 544556006552 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 544556006553 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 544556006554 Protein of unknown function (DUF524); Region: DUF524; pfam04411 544556006555 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 544556006556 non-specific DNA binding site [nucleotide binding]; other site 544556006557 salt bridge; other site 544556006558 sequence-specific DNA binding site [nucleotide binding]; other site 544556006559 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 544556006560 putative active site [active] 544556006561 catalytic site [active] 544556006562 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 544556006563 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 544556006564 ATP binding site [chemical binding]; other site 544556006565 putative Mg++ binding site [ion binding]; other site 544556006566 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 544556006567 nucleotide binding region [chemical binding]; other site 544556006568 ATP-binding site [chemical binding]; other site 544556006569 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 544556006570 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 544556006571 DNA methylase; Region: N6_N4_Mtase; cl17433 544556006572 DNA methylase; Region: N6_N4_Mtase; pfam01555 544556006573 DNA methylase; Region: N6_N4_Mtase; cl17433 544556006574 Restriction endonuclease [Defense mechanisms]; Region: COG3587 544556006575 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 544556006576 ATP binding site [chemical binding]; other site 544556006577 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556006578 Transposase; Region: DEDD_Tnp_IS110; pfam01548 544556006579 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 544556006580 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556006581 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 544556006582 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 544556006583 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 544556006584 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 544556006585 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 544556006586 malate:quinone oxidoreductase; Validated; Region: PRK05257 544556006587 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 544556006588 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 544556006589 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 544556006590 DXD motif; other site 544556006591 hypothetical protein; Provisional; Region: PRK03057 544556006592 UPF0302 domain; Region: UPF0302; pfam08864 544556006593 A short protein domain of unknown function; Region: IDEAL; smart00914 544556006594 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 544556006595 hydroxyglutarate oxidase; Provisional; Region: PRK11728 544556006596 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 544556006597 Protein of unknown function (DUF975); Region: DUF975; cl10504 544556006598 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 544556006599 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 544556006600 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 544556006601 dimerization interface [polypeptide binding]; other site 544556006602 putative DNA binding site [nucleotide binding]; other site 544556006603 putative Zn2+ binding site [ion binding]; other site 544556006604 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 544556006605 Transcriptional regulator [Transcription]; Region: LysR; COG0583 544556006606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 544556006607 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 544556006608 putative dimerization interface [polypeptide binding]; other site 544556006609 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 544556006610 Flavodoxin; Region: Flavodoxin_1; pfam00258 544556006611 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 544556006612 FAD binding pocket [chemical binding]; other site 544556006613 FAD binding motif [chemical binding]; other site 544556006614 catalytic residues [active] 544556006615 NAD binding pocket [chemical binding]; other site 544556006616 phosphate binding motif [ion binding]; other site 544556006617 beta-alpha-beta structure motif; other site 544556006618 sulfite reductase subunit beta; Provisional; Region: PRK13504 544556006619 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 544556006620 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 544556006621 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 544556006622 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12859 544556006623 classical (c) SDRs; Region: SDR_c; cd05233 544556006624 NAD(P) binding site [chemical binding]; other site 544556006625 active site 544556006626 Protein of unknown function (DUF998); Region: DUF998; pfam06197 544556006627 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 544556006628 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 544556006629 putative DNA binding site [nucleotide binding]; other site 544556006630 putative Zn2+ binding site [ion binding]; other site 544556006631 AAA domain; Region: AAA_30; pfam13604 544556006632 AAA domain; Region: AAA_11; pfam13086 544556006633 AAA domain; Region: AAA_12; pfam13087 544556006634 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 544556006635 DNA methylase; Region: N6_N4_Mtase; pfam01555 544556006636 DNA methylase; Region: N6_N4_Mtase; cl17433 544556006637 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 544556006638 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 544556006639 Na binding site [ion binding]; other site 544556006640 putative substrate binding site [chemical binding]; other site 544556006641 mammalian-like beta-alanine synthase (beta-AS) and similar proteins (class 5 nitrilases); Region: ML_beta-AS_like; cd07568 544556006642 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 544556006643 putative active site [active] 544556006644 catalytic triad [active] 544556006645 multimer interface [polypeptide binding]; other site 544556006646 dimer interface [polypeptide binding]; other site 544556006647 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 544556006648 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 544556006649 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 544556006650 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 544556006651 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 544556006652 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 544556006653 homodimer interface [polypeptide binding]; other site 544556006654 active site 544556006655 FMN binding site [chemical binding]; other site 544556006656 substrate binding site [chemical binding]; other site 544556006657 4Fe-4S binding domain; Region: Fer4; pfam00037 544556006658 phenylhydantoinase; Validated; Region: PRK08323 544556006659 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 544556006660 tetramer interface [polypeptide binding]; other site 544556006661 active site 544556006662 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 544556006663 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 544556006664 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 544556006665 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 544556006666 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 544556006667 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 544556006668 tetrameric interface [polypeptide binding]; other site 544556006669 NAD binding site [chemical binding]; other site 544556006670 catalytic residues [active] 544556006671 aminotransferase; Validated; Region: PRK07678 544556006672 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 544556006673 inhibitor-cofactor binding pocket; inhibition site 544556006674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556006675 catalytic residue [active] 544556006676 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 544556006677 Probable transposase; Region: OrfB_IS605; pfam01385 544556006678 Yhfp putative quinone oxidoreductases; Region: MDR_yhfp_like; cd08289 544556006679 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 544556006680 putative NADP binding site [chemical binding]; other site 544556006681 putative dimer interface [polypeptide binding]; other site 544556006682 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 544556006683 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 544556006684 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 544556006685 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 544556006686 Transcriptional regulator [Transcription]; Region: LysR; COG0583 544556006687 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 544556006688 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 544556006689 putative dimerization interface [polypeptide binding]; other site 544556006690 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 544556006691 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 544556006692 active site 544556006693 dimer interface [polypeptide binding]; other site 544556006694 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 544556006695 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 544556006696 active site 544556006697 FMN binding site [chemical binding]; other site 544556006698 substrate binding site [chemical binding]; other site 544556006699 3Fe-4S cluster binding site [ion binding]; other site 544556006700 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 544556006701 domain interface; other site 544556006702 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 544556006703 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 544556006704 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 544556006705 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 544556006706 active site 544556006707 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 544556006708 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 544556006709 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 544556006710 Phosphotransferase enzyme family; Region: APH; pfam01636 544556006711 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 544556006712 active site 544556006713 ATP binding site [chemical binding]; other site 544556006714 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 544556006715 substrate binding site [chemical binding]; other site 544556006716 NAD-dependent deacetylase; Provisional; Region: PRK00481 544556006717 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2_Af2; cd01413 544556006718 NAD+ binding site [chemical binding]; other site 544556006719 substrate binding site [chemical binding]; other site 544556006720 Zn binding site [ion binding]; other site 544556006721 intracellular protease, PfpI family; Region: PfpI; TIGR01382 544556006722 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 544556006723 conserved cys residue [active] 544556006724 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 544556006725 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 544556006726 Malic enzyme, N-terminal domain; Region: malic; pfam00390 544556006727 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 544556006728 putative NAD(P) binding site [chemical binding]; other site 544556006729 hypothetical protein; Provisional; Region: PRK02947 544556006730 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 544556006731 putative active site [active] 544556006732 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 544556006733 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 544556006734 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 544556006735 putative active site [active] 544556006736 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 544556006737 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 544556006738 active site 544556006739 phosphorylation site [posttranslational modification] 544556006740 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 544556006741 active site 544556006742 P-loop; other site 544556006743 phosphorylation site [posttranslational modification] 544556006744 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 544556006745 alpha-mannosidase; Provisional; Region: PRK09819 544556006746 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 544556006747 active site 544556006748 metal binding site [ion binding]; metal-binding site 544556006749 catalytic site [active] 544556006750 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 544556006751 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 544556006752 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 544556006753 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 544556006754 Major Facilitator Superfamily; Region: MFS_1; pfam07690 544556006755 putative substrate translocation pore; other site 544556006756 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 544556006757 LysE type translocator; Region: LysE; cl00565 544556006758 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 544556006759 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; pfam10112 544556006760 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 544556006761 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 544556006762 Protein of unknown function (DUF4025); Region: DUF4025; pfam13217 544556006763 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 544556006764 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 544556006765 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 544556006766 metal binding triad; other site 544556006767 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 544556006768 hypothetical protein; Provisional; Region: PRK07740 544556006769 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 544556006770 active site 544556006771 catalytic site [active] 544556006772 substrate binding site [chemical binding]; other site 544556006773 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 544556006774 Major Facilitator Superfamily; Region: MFS_1; pfam07690 544556006775 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 544556006776 putative substrate translocation pore; other site 544556006777 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 544556006778 salicylate hydroxylase; Provisional; Region: PRK08163 544556006779 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 544556006780 Cupin domain; Region: Cupin_2; pfam07883 544556006781 Cupin domain; Region: Cupin_2; pfam07883 544556006782 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 544556006783 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 544556006784 YCII-related domain; Region: YCII; pfam03795 544556006785 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 544556006786 Transcriptional regulator [Transcription]; Region: IclR; COG1414 544556006787 Bacterial transcriptional regulator; Region: IclR; pfam01614 544556006788 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 544556006789 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 544556006790 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 544556006791 siderophore binding site; other site 544556006792 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 544556006793 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 544556006794 ABC-ATPase subunit interface; other site 544556006795 dimer interface [polypeptide binding]; other site 544556006796 putative PBP binding regions; other site 544556006797 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 544556006798 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 544556006799 ABC-ATPase subunit interface; other site 544556006800 dimer interface [polypeptide binding]; other site 544556006801 putative PBP binding regions; other site 544556006802 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 544556006803 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 544556006804 Walker A/P-loop; other site 544556006805 ATP binding site [chemical binding]; other site 544556006806 Q-loop/lid; other site 544556006807 ABC transporter signature motif; other site 544556006808 Walker B; other site 544556006809 D-loop; other site 544556006810 H-loop/switch region; other site 544556006811 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 544556006812 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 544556006813 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 544556006814 PAS domain S-box; Region: sensory_box; TIGR00229 544556006815 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 544556006816 heme pocket [chemical binding]; other site 544556006817 putative active site [active] 544556006818 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 544556006819 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 544556006820 metal binding site [ion binding]; metal-binding site 544556006821 active site 544556006822 I-site; other site 544556006823 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 544556006824 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 544556006825 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 544556006826 Coenzyme A binding pocket [chemical binding]; other site 544556006827 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 544556006828 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 544556006829 catalytic core [active] 544556006830 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 544556006831 Nucleoside recognition; Region: Gate; pfam07670 544556006832 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 544556006833 Nucleoside recognition; Region: Gate; pfam07670 544556006834 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 544556006835 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 544556006836 G1 box; other site 544556006837 GTP/Mg2+ binding site [chemical binding]; other site 544556006838 Switch I region; other site 544556006839 G2 box; other site 544556006840 G3 box; other site 544556006841 Switch II region; other site 544556006842 G4 box; other site 544556006843 G5 box; other site 544556006844 FeoA domain; Region: FeoA; pfam04023 544556006845 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 544556006846 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 544556006847 acyl-activating enzyme (AAE) consensus motif; other site 544556006848 putative AMP binding site [chemical binding]; other site 544556006849 putative active site [active] 544556006850 putative CoA binding site [chemical binding]; other site 544556006851 GAF domain; Region: GAF; cl17456 544556006852 GAF domain; Region: GAF_2; pfam13185 544556006853 GAF domain; Region: GAF_2; pfam13185 544556006854 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 544556006855 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 544556006856 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 544556006857 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 544556006858 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 544556006859 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 544556006860 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 544556006861 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 544556006862 substrate binding site [chemical binding]; other site 544556006863 oxyanion hole (OAH) forming residues; other site 544556006864 trimer interface [polypeptide binding]; other site 544556006865 benzoate transport; Region: 2A0115; TIGR00895 544556006866 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 544556006867 putative substrate translocation pore; other site 544556006868 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 544556006869 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 544556006870 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 544556006871 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 544556006872 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 544556006873 acyl-activating enzyme (AAE) consensus motif; other site 544556006874 acyl-activating enzyme (AAE) consensus motif; other site 544556006875 putative AMP binding site [chemical binding]; other site 544556006876 putative active site [active] 544556006877 putative CoA binding site [chemical binding]; other site 544556006878 putative acyltransferase; Provisional; Region: PRK05790 544556006879 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 544556006880 dimer interface [polypeptide binding]; other site 544556006881 active site 544556006882 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 544556006883 Transcriptional regulator [Transcription]; Region: IclR; COG1414 544556006884 Bacterial transcriptional regulator; Region: IclR; pfam01614 544556006885 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 544556006886 Cupin domain; Region: Cupin_2; pfam07883 544556006887 Cupin domain; Region: Cupin_2; pfam07883 544556006888 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 544556006889 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 544556006890 acyl-activating enzyme (AAE) consensus motif; other site 544556006891 putative AMP binding site [chemical binding]; other site 544556006892 putative active site [active] 544556006893 putative CoA binding site [chemical binding]; other site 544556006894 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 544556006895 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 544556006896 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 544556006897 putative substrate translocation pore; other site 544556006898 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 544556006899 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 544556006900 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 544556006901 Amidohydrolase; Region: Amidohydro_2; pfam04909 544556006902 Transcriptional regulator [Transcription]; Region: IclR; COG1414 544556006903 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 544556006904 putative DNA binding site [nucleotide binding]; other site 544556006905 putative Zn2+ binding site [ion binding]; other site 544556006906 Bacterial transcriptional regulator; Region: IclR; pfam01614 544556006907 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 544556006908 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 544556006909 NAD binding site [chemical binding]; other site 544556006910 catalytic residues [active] 544556006911 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 544556006912 acetaldehyde dehydrogenase; Validated; Region: PRK08300 544556006913 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 544556006914 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 544556006915 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 544556006916 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 544556006917 active site 544556006918 catalytic residues [active] 544556006919 metal binding site [ion binding]; metal-binding site 544556006920 DmpG-like communication domain; Region: DmpG_comm; pfam07836 544556006921 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 544556006922 4-oxalocrotonate tautomerase; Provisional; Region: PRK01964 544556006923 active site 1 [active] 544556006924 dimer interface [polypeptide binding]; other site 544556006925 hexamer interface [polypeptide binding]; other site 544556006926 active site 2 [active] 544556006927 Class III extradiol dioxygenases with similarity to homoprotocatechuate 2,3-dioxygenase, which catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD_like; cd07362 544556006928 putative active site [active] 544556006929 putative metal binding site [ion binding]; other site 544556006930 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 544556006931 Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; Region: PBP1_aromatic_compounds_like; cd06332 544556006932 putative ligand binding site [chemical binding]; other site 544556006933 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 544556006934 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 544556006935 TM-ABC transporter signature motif; other site 544556006936 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 544556006937 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 544556006938 TM-ABC transporter signature motif; other site 544556006939 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 544556006940 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 544556006941 Walker A/P-loop; other site 544556006942 ATP binding site [chemical binding]; other site 544556006943 Q-loop/lid; other site 544556006944 ABC transporter signature motif; other site 544556006945 Walker B; other site 544556006946 D-loop; other site 544556006947 H-loop/switch region; other site 544556006948 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 544556006949 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 544556006950 Walker A/P-loop; other site 544556006951 ATP binding site [chemical binding]; other site 544556006952 Q-loop/lid; other site 544556006953 ABC transporter signature motif; other site 544556006954 Walker B; other site 544556006955 D-loop; other site 544556006956 H-loop/switch region; other site 544556006957 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 544556006958 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 544556006959 NAD(P) binding site [chemical binding]; other site 544556006960 catalytic residues [active] 544556006961 Transcriptional regulator [Transcription]; Region: IclR; COG1414 544556006962 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 544556006963 putative DNA binding site [nucleotide binding]; other site 544556006964 putative Zn2+ binding site [ion binding]; other site 544556006965 Bacterial transcriptional regulator; Region: IclR; pfam01614 544556006966 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 544556006967 dimerization interface [polypeptide binding]; other site 544556006968 Transcriptional regulator [Transcription]; Region: IclR; COG1414 544556006969 putative DNA binding site [nucleotide binding]; other site 544556006970 putative Zn2+ binding site [ion binding]; other site 544556006971 Bacterial transcriptional regulator; Region: IclR; pfam01614 544556006972 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 544556006973 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 544556006974 acyl-activating enzyme (AAE) consensus motif; other site 544556006975 AMP binding site [chemical binding]; other site 544556006976 active site 544556006977 CoA binding site [chemical binding]; other site 544556006978 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 544556006979 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 544556006980 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 544556006981 active site 544556006982 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 544556006983 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 544556006984 DinB superfamily; Region: DinB_2; pfam12867 544556006985 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 544556006986 Cupin domain; Region: Cupin_2; pfam07883 544556006987 Cupin domain; Region: Cupin_2; pfam07883 544556006988 benzoate transport; Region: 2A0115; TIGR00895 544556006989 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 544556006990 putative substrate translocation pore; other site 544556006991 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 544556006992 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 544556006993 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 544556006994 Walker A/P-loop; other site 544556006995 ATP binding site [chemical binding]; other site 544556006996 Q-loop/lid; other site 544556006997 ABC transporter signature motif; other site 544556006998 Walker B; other site 544556006999 D-loop; other site 544556007000 H-loop/switch region; other site 544556007001 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 544556007002 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 544556007003 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 544556007004 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 544556007005 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 544556007006 DNA binding residues [nucleotide binding] 544556007007 putative dimer interface [polypeptide binding]; other site 544556007008 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 544556007009 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 544556007010 acyl-activating enzyme (AAE) consensus motif; other site 544556007011 putative AMP binding site [chemical binding]; other site 544556007012 putative active site [active] 544556007013 putative CoA binding site [chemical binding]; other site 544556007014 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 544556007015 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 544556007016 active site 544556007017 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 544556007018 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 544556007019 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 544556007020 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 544556007021 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 544556007022 active site 544556007023 phosphorylation site [posttranslational modification] 544556007024 intermolecular recognition site; other site 544556007025 dimerization interface [polypeptide binding]; other site 544556007026 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 544556007027 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 544556007028 metal binding site [ion binding]; metal-binding site 544556007029 active site 544556007030 I-site; other site 544556007031 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 544556007032 Response regulator receiver domain; Region: Response_reg; pfam00072 544556007033 active site 544556007034 phosphorylation site [posttranslational modification] 544556007035 intermolecular recognition site; other site 544556007036 dimerization interface [polypeptide binding]; other site 544556007037 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 544556007038 active site 544556007039 phosphorylation site [posttranslational modification] 544556007040 intermolecular recognition site; other site 544556007041 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 544556007042 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 544556007043 dimer interface [polypeptide binding]; other site 544556007044 phosphorylation site [posttranslational modification] 544556007045 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 544556007046 ATP binding site [chemical binding]; other site 544556007047 Mg2+ binding site [ion binding]; other site 544556007048 G-X-G motif; other site 544556007049 Uncharacterized conserved protein [Function unknown]; Region: COG2135 544556007050 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 544556007051 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 544556007052 Uncharacterized conserved protein [Function unknown]; Region: COG0062 544556007053 putative carbohydrate kinase; Provisional; Region: PRK10565 544556007054 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 544556007055 putative substrate binding site [chemical binding]; other site 544556007056 putative ATP binding site [chemical binding]; other site 544556007057 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 544556007058 Coenzyme A binding pocket [chemical binding]; other site 544556007059 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 544556007060 Transcriptional regulator [Transcription]; Region: IclR; COG1414 544556007061 Bacterial transcriptional regulator; Region: IclR; pfam01614 544556007062 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 544556007063 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 544556007064 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 544556007065 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 544556007066 putative active site [active] 544556007067 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 544556007068 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 544556007069 motif II; other site 544556007070 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 544556007071 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 544556007072 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 544556007073 acyl-activating enzyme (AAE) consensus motif; other site 544556007074 putative AMP binding site [chemical binding]; other site 544556007075 putative active site [active] 544556007076 putative CoA binding site [chemical binding]; other site 544556007077 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 544556007078 active site 544556007079 substrate binding pocket [chemical binding]; other site 544556007080 homodimer interaction site [polypeptide binding]; other site 544556007081 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 544556007082 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 544556007083 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 544556007084 Ligand binding site; other site 544556007085 Putative Catalytic site; other site 544556007086 DXD motif; other site 544556007087 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 544556007088 substrate binding site [chemical binding]; other site 544556007089 multimerization interface [polypeptide binding]; other site 544556007090 ATP binding site [chemical binding]; other site 544556007091 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 544556007092 dimer interface [polypeptide binding]; other site 544556007093 substrate binding site [chemical binding]; other site 544556007094 ATP binding site [chemical binding]; other site 544556007095 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 544556007096 thiamine phosphate binding site [chemical binding]; other site 544556007097 active site 544556007098 pyrophosphate binding site [ion binding]; other site 544556007099 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 544556007100 Acyltransferase family; Region: Acyl_transf_3; pfam01757 544556007101 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 544556007102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556007103 Transposase; Region: DEDD_Tnp_IS110; pfam01548 544556007104 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 544556007105 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556007106 small acid-soluble spore protein, H-type; Region: SASP_H; TIGR02861 544556007107 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 544556007108 Uncharacterized conserved protein [Function unknown]; Region: COG1284 544556007109 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 544556007110 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 544556007111 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 544556007112 active site 544556007113 catalytic triad [active] 544556007114 Coat F domain; Region: Coat_F; pfam07875 544556007115 Domain of unknown function (DUF892); Region: DUF892; cl17410 544556007116 Histidine kinase N terminal; Region: HisK_N; pfam09385 544556007117 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 544556007118 dimer interface [polypeptide binding]; other site 544556007119 phosphorylation site [posttranslational modification] 544556007120 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 544556007121 ATP binding site [chemical binding]; other site 544556007122 Mg2+ binding site [ion binding]; other site 544556007123 G-X-G motif; other site 544556007124 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 544556007125 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 544556007126 dimer interface [polypeptide binding]; other site 544556007127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556007128 catalytic residue [active] 544556007129 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 544556007130 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 544556007131 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 544556007132 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 544556007133 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 544556007134 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 544556007135 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 544556007136 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 544556007137 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 544556007138 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 544556007139 FAD binding domain; Region: FAD_binding_4; pfam01565 544556007140 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 544556007141 Cysteine-rich domain; Region: CCG; pfam02754 544556007142 Cysteine-rich domain; Region: CCG; pfam02754 544556007143 FAD binding domain; Region: FAD_binding_4; pfam01565 544556007144 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 544556007145 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 544556007146 active site 544556007147 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 544556007148 Malic enzyme, N-terminal domain; Region: malic; pfam00390 544556007149 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 544556007150 putative NAD(P) binding site [chemical binding]; other site 544556007151 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 544556007152 Transcriptional regulator [Transcription]; Region: IclR; COG1414 544556007153 Bacterial transcriptional regulator; Region: IclR; pfam01614 544556007154 Probable transposase; Region: OrfB_IS605; pfam01385 544556007155 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 544556007156 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 544556007157 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 544556007158 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 544556007159 ATP binding site [chemical binding]; other site 544556007160 putative Mg++ binding site [ion binding]; other site 544556007161 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 544556007162 nucleotide binding region [chemical binding]; other site 544556007163 ATP-binding site [chemical binding]; other site 544556007164 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 544556007165 RNase_H superfamily; Region: RNase_H_2; pfam13482 544556007166 active site 544556007167 substrate binding site [chemical binding]; other site 544556007168 DDE superfamily endonuclease; Region: DDE_5; cl17874 544556007169 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556007170 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 544556007171 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 544556007172 cell division protein GpsB; Provisional; Region: PRK14127 544556007173 DivIVA domain; Region: DivI1A_domain; TIGR03544 544556007174 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 544556007175 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 544556007176 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 544556007177 S-adenosylmethionine binding site [chemical binding]; other site 544556007178 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 544556007179 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 544556007180 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 544556007181 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 544556007182 active site 544556007183 Zn binding site [ion binding]; other site 544556007184 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 544556007185 D-pathway; other site 544556007186 Low-spin heme binding site [chemical binding]; other site 544556007187 Putative water exit pathway; other site 544556007188 Binuclear center (active site) [active] 544556007189 K-pathway; other site 544556007190 Putative proton exit pathway; other site 544556007191 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 544556007192 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 544556007193 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 544556007194 active site 544556007195 xanthine permease; Region: pbuX; TIGR03173 544556007196 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 544556007197 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 544556007198 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 544556007199 malonyl-CoA binding site [chemical binding]; other site 544556007200 dimer interface [polypeptide binding]; other site 544556007201 active site 544556007202 product binding site; other site 544556007203 Phospholipid methyltransferase; Region: PEMT; cl17370 544556007204 Protein of unknown function, DUF258; Region: DUF258; pfam03193 544556007205 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 544556007206 Dynamin family; Region: Dynamin_N; pfam00350 544556007207 G1 box; other site 544556007208 GTP/Mg2+ binding site [chemical binding]; other site 544556007209 G2 box; other site 544556007210 Switch I region; other site 544556007211 G3 box; other site 544556007212 Switch II region; other site 544556007213 G4 box; other site 544556007214 G5 box; other site 544556007215 Dynamin family; Region: Dynamin_N; pfam00350 544556007216 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 544556007217 G3 box; other site 544556007218 Switch II region; other site 544556007219 GTP/Mg2+ binding site [chemical binding]; other site 544556007220 G4 box; other site 544556007221 G5 box; other site 544556007222 Protein of unknown function (DUF2533); Region: DUF2533; pfam10752 544556007223 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 544556007224 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 544556007225 active site residue [active] 544556007226 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 544556007227 active site residue [active] 544556007228 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 544556007229 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 544556007230 catalytic residues [active] 544556007231 acid-soluble spore protein N; Provisional; Region: sspN; PRK09398 544556007232 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 544556007233 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 544556007234 active site 544556007235 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 544556007236 CoenzymeA binding site [chemical binding]; other site 544556007237 subunit interaction site [polypeptide binding]; other site 544556007238 PHB binding site; other site 544556007239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4841 544556007240 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 544556007241 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 544556007242 Cl binding site [ion binding]; other site 544556007243 oligomer interface [polypeptide binding]; other site 544556007244 Protein of unknown function (DUF502); Region: DUF502; cl01107 544556007245 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 544556007246 hydroxyglutarate oxidase; Provisional; Region: PRK11728 544556007247 biotin synthase; Validated; Region: PRK06256 544556007248 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 544556007249 FeS/SAM binding site; other site 544556007250 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 544556007251 hypothetical protein; Provisional; Region: PRK13672 544556007252 YozD-like protein; Region: YozD; pfam14162 544556007253 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 544556007254 YodL-like; Region: YodL; pfam14191 544556007255 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 544556007256 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 544556007257 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 544556007258 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 544556007259 Methyltransferase domain; Region: Methyltransf_31; pfam13847 544556007260 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 544556007261 S-adenosylmethionine binding site [chemical binding]; other site 544556007262 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 544556007263 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 544556007264 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 544556007265 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 544556007266 oligomer interface [polypeptide binding]; other site 544556007267 Predicted permeases [General function prediction only]; Region: RarD; COG2962 544556007268 EamA-like transporter family; Region: EamA; pfam00892 544556007269 Uncharacterized conserved protein [Function unknown]; Region: COG3342 544556007270 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 544556007271 Putative peptidoglycan binding domain; Region: PG_binding_2; pfam08823 544556007272 multidrug efflux protein; Reviewed; Region: PRK01766 544556007273 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 544556007274 cation binding site [ion binding]; other site 544556007275 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 544556007276 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 544556007277 putative active site [active] 544556007278 heme pocket [chemical binding]; other site 544556007279 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 544556007280 dimer interface [polypeptide binding]; other site 544556007281 phosphorylation site [posttranslational modification] 544556007282 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 544556007283 ATP binding site [chemical binding]; other site 544556007284 Mg2+ binding site [ion binding]; other site 544556007285 G-X-G motif; other site 544556007286 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 544556007287 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 544556007288 threonine dehydratase; Provisional; Region: PRK08198 544556007289 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 544556007290 tetramer interface [polypeptide binding]; other site 544556007291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556007292 catalytic residue [active] 544556007293 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 544556007294 Predicted acetyltransferase [General function prediction only]; Region: COG3393 544556007295 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 544556007296 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 544556007297 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 544556007298 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 544556007299 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 544556007300 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 544556007301 active site 544556007302 AMP-binding domain protein; Validated; Region: PRK08315 544556007303 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 544556007304 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 544556007305 acyl-activating enzyme (AAE) consensus motif; other site 544556007306 putative AMP binding site [chemical binding]; other site 544556007307 putative active site [active] 544556007308 putative CoA binding site [chemical binding]; other site 544556007309 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 544556007310 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 544556007311 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 544556007312 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 544556007313 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 544556007314 carboxyltransferase (CT) interaction site; other site 544556007315 biotinylation site [posttranslational modification]; other site 544556007316 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 544556007317 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 544556007318 active site 544556007319 catalytic residues [active] 544556007320 metal binding site [ion binding]; metal-binding site 544556007321 enoyl-CoA hydratase; Provisional; Region: PRK07657 544556007322 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 544556007323 substrate binding site [chemical binding]; other site 544556007324 oxyanion hole (OAH) forming residues; other site 544556007325 trimer interface [polypeptide binding]; other site 544556007326 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 544556007327 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 544556007328 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 544556007329 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 544556007330 MarR family; Region: MarR; pfam01047 544556007331 HlyD family secretion protein; Region: HlyD_3; pfam13437 544556007332 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 544556007333 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 544556007334 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 544556007335 putative substrate translocation pore; other site 544556007336 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 544556007337 Protein of unknown function (DUF2639); Region: DUF2639; pfam11121 544556007338 NETI protein; Region: NETI; pfam14044 544556007339 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 544556007340 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 544556007341 dimer interface [polypeptide binding]; other site 544556007342 phosphorylation site [posttranslational modification] 544556007343 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 544556007344 ATP binding site [chemical binding]; other site 544556007345 Mg2+ binding site [ion binding]; other site 544556007346 G-X-G motif; other site 544556007347 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 544556007348 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 544556007349 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 544556007350 Spore germination protein; Region: Spore_permease; cl17796 544556007351 Predicted membrane protein [Function unknown]; Region: COG2323 544556007352 Predicted transcriptional regulators [Transcription]; Region: COG1725 544556007353 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 544556007354 DNA-binding site [nucleotide binding]; DNA binding site 544556007355 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 544556007356 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 544556007357 Walker A/P-loop; other site 544556007358 ATP binding site [chemical binding]; other site 544556007359 Q-loop/lid; other site 544556007360 ABC transporter signature motif; other site 544556007361 Walker B; other site 544556007362 D-loop; other site 544556007363 H-loop/switch region; other site 544556007364 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 544556007365 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 544556007366 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 544556007367 Spore germination protein; Region: Spore_permease; pfam03845 544556007368 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 544556007369 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 544556007370 putative active site [active] 544556007371 heme pocket [chemical binding]; other site 544556007372 PAS domain; Region: PAS; smart00091 544556007373 putative active site [active] 544556007374 heme pocket [chemical binding]; other site 544556007375 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 544556007376 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 544556007377 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; cl00075 544556007378 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 544556007379 anti sigma factor interaction site; other site 544556007380 regulatory phosphorylation site [posttranslational modification]; other site 544556007381 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 544556007382 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 544556007383 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 544556007384 Walker A/P-loop; other site 544556007385 ATP binding site [chemical binding]; other site 544556007386 Q-loop/lid; other site 544556007387 ABC transporter signature motif; other site 544556007388 Walker B; other site 544556007389 D-loop; other site 544556007390 H-loop/switch region; other site 544556007391 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 544556007392 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 544556007393 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 544556007394 Walker A/P-loop; other site 544556007395 ATP binding site [chemical binding]; other site 544556007396 Q-loop/lid; other site 544556007397 ABC transporter signature motif; other site 544556007398 Walker B; other site 544556007399 D-loop; other site 544556007400 H-loop/switch region; other site 544556007401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 544556007402 MOSC domain; Region: MOSC; pfam03473 544556007403 3-alpha domain; Region: 3-alpha; pfam03475 544556007404 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 544556007405 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 544556007406 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 544556007407 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 544556007408 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 544556007409 putative catalytic residue [active] 544556007410 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 544556007411 putative active site pocket [active] 544556007412 dimerization interface [polypeptide binding]; other site 544556007413 putative catalytic residue [active] 544556007414 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 544556007415 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 544556007416 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 544556007417 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 544556007418 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 544556007419 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 544556007420 active site 544556007421 catalytic triad [active] 544556007422 oxyanion hole [active] 544556007423 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 544556007424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 544556007425 Walker A/P-loop; other site 544556007426 ATP binding site [chemical binding]; other site 544556007427 Q-loop/lid; other site 544556007428 ABC transporter signature motif; other site 544556007429 Walker B; other site 544556007430 D-loop; other site 544556007431 H-loop/switch region; other site 544556007432 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 544556007433 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 544556007434 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 544556007435 PemK-like protein; Region: PemK; cl00995 544556007436 Pirin-related protein [General function prediction only]; Region: COG1741 544556007437 Pirin; Region: Pirin; pfam02678 544556007438 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 544556007439 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 544556007440 dimer interface [polypeptide binding]; other site 544556007441 FMN binding site [chemical binding]; other site 544556007442 NADPH bind site [chemical binding]; other site 544556007443 NAD-dependent deacetylase; Provisional; Region: PRK00481 544556007444 SIR2 superfamily 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; cl00195 544556007445 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 544556007446 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 544556007447 active site 544556007448 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 544556007449 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 544556007450 NAD(P) binding site [chemical binding]; other site 544556007451 homotetramer interface [polypeptide binding]; other site 544556007452 homodimer interface [polypeptide binding]; other site 544556007453 active site 544556007454 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 544556007455 active site 544556007456 catalytic site [active] 544556007457 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 544556007458 active site 544556007459 catalytic site [active] 544556007460 putative acyltransferase; Provisional; Region: PRK05790 544556007461 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 544556007462 dimer interface [polypeptide binding]; other site 544556007463 active site 544556007464 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 544556007465 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 544556007466 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 544556007467 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 544556007468 TM-ABC transporter signature motif; other site 544556007469 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 544556007470 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 544556007471 TM-ABC transporter signature motif; other site 544556007472 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 544556007473 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 544556007474 Walker A/P-loop; other site 544556007475 ATP binding site [chemical binding]; other site 544556007476 Q-loop/lid; other site 544556007477 ABC transporter signature motif; other site 544556007478 Walker B; other site 544556007479 D-loop; other site 544556007480 H-loop/switch region; other site 544556007481 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 544556007482 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 544556007483 Walker A/P-loop; other site 544556007484 ATP binding site [chemical binding]; other site 544556007485 Q-loop/lid; other site 544556007486 ABC transporter signature motif; other site 544556007487 Walker B; other site 544556007488 D-loop; other site 544556007489 H-loop/switch region; other site 544556007490 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 544556007491 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 544556007492 putative ligand binding site [chemical binding]; other site 544556007493 OsmC-like protein; Region: OsmC; pfam02566 544556007494 QueT transporter; Region: QueT; pfam06177 544556007495 Chromate transporter; Region: Chromate_transp; pfam02417 544556007496 Protein of unknown function, DUF606; Region: DUF606; pfam04657 544556007497 Predicted membrane protein [Function unknown]; Region: COG1511 544556007498 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 544556007499 Predicted membrane protein [Function unknown]; Region: COG1511 544556007500 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 544556007501 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 544556007502 active site 544556007503 dimer interface [polypeptide binding]; other site 544556007504 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 544556007505 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 544556007506 Walker A/P-loop; other site 544556007507 ATP binding site [chemical binding]; other site 544556007508 Q-loop/lid; other site 544556007509 ABC transporter signature motif; other site 544556007510 Walker B; other site 544556007511 D-loop; other site 544556007512 H-loop/switch region; other site 544556007513 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 544556007514 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 544556007515 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 544556007516 classical (c) SDRs; Region: SDR_c; cd05233 544556007517 NAD(P) binding site [chemical binding]; other site 544556007518 active site 544556007519 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 544556007520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 544556007521 NAD(P) binding site [chemical binding]; other site 544556007522 active site 544556007523 enoyl-CoA hydratase; Provisional; Region: PRK06688 544556007524 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 544556007525 substrate binding site [chemical binding]; other site 544556007526 oxyanion hole (OAH) forming residues; other site 544556007527 trimer interface [polypeptide binding]; other site 544556007528 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 544556007529 Catalytic domain of Protein Kinases; Region: PKc; cd00180 544556007530 active site 544556007531 ATP binding site [chemical binding]; other site 544556007532 substrate binding site [chemical binding]; other site 544556007533 activation loop (A-loop); other site 544556007534 DNA topoisomerase III; Provisional; Region: PRK07726 544556007535 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 544556007536 active site 544556007537 putative interdomain interaction site [polypeptide binding]; other site 544556007538 putative metal-binding site [ion binding]; other site 544556007539 putative nucleotide binding site [chemical binding]; other site 544556007540 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 544556007541 domain I; other site 544556007542 DNA binding groove [nucleotide binding] 544556007543 phosphate binding site [ion binding]; other site 544556007544 domain II; other site 544556007545 domain III; other site 544556007546 nucleotide binding site [chemical binding]; other site 544556007547 catalytic site [active] 544556007548 domain IV; other site 544556007549 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 544556007550 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 544556007551 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 544556007552 dimerization interface [polypeptide binding]; other site 544556007553 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 544556007554 dimer interface [polypeptide binding]; other site 544556007555 phosphorylation site [posttranslational modification] 544556007556 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 544556007557 ATP binding site [chemical binding]; other site 544556007558 Mg2+ binding site [ion binding]; other site 544556007559 G-X-G motif; other site 544556007560 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 544556007561 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 544556007562 active site 544556007563 phosphorylation site [posttranslational modification] 544556007564 intermolecular recognition site; other site 544556007565 dimerization interface [polypeptide binding]; other site 544556007566 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 544556007567 DNA binding site [nucleotide binding] 544556007568 Uncharacterized conserved protein [Function unknown]; Region: COG0398 544556007569 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 544556007570 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 544556007571 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 544556007572 Uncharacterized conserved protein [Function unknown]; Region: COG3402 544556007573 Predicted membrane protein [Function unknown]; Region: COG3428 544556007574 Bacterial PH domain; Region: DUF304; pfam03703 544556007575 Bacterial PH domain; Region: DUF304; pfam03703 544556007576 Bacterial PH domain; Region: DUF304; pfam03703 544556007577 LysE type translocator; Region: LysE; cl00565 544556007578 DNA polymerase IV; Validated; Region: PRK01810 544556007579 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 544556007580 active site 544556007581 DNA binding site [nucleotide binding] 544556007582 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 544556007583 H+ Antiporter protein; Region: 2A0121; TIGR00900 544556007584 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 544556007585 putative substrate translocation pore; other site 544556007586 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 544556007587 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 544556007588 dimer interface [polypeptide binding]; other site 544556007589 active site 544556007590 heme binding site [chemical binding]; other site 544556007591 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 544556007592 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 544556007593 DHH family; Region: DHH; pfam01368 544556007594 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 544556007595 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 544556007596 metal ion-dependent adhesion site (MIDAS); other site 544556007597 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 544556007598 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 544556007599 Walker A motif; other site 544556007600 ATP binding site [chemical binding]; other site 544556007601 Walker B motif; other site 544556007602 arginine finger; other site 544556007603 Replication terminator protein; Region: RTP; pfam02334 544556007604 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 544556007605 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 544556007606 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 544556007607 putative active site [active] 544556007608 putative substrate binding site [chemical binding]; other site 544556007609 putative cosubstrate binding site; other site 544556007610 catalytic site [active] 544556007611 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 544556007612 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 544556007613 heme-binding site [chemical binding]; other site 544556007614 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 544556007615 FAD binding pocket [chemical binding]; other site 544556007616 FAD binding motif [chemical binding]; other site 544556007617 phosphate binding motif [ion binding]; other site 544556007618 beta-alpha-beta structure motif; other site 544556007619 NAD binding pocket [chemical binding]; other site 544556007620 Heme binding pocket [chemical binding]; other site 544556007621 Transcriptional regulator; Region: Rrf2; cl17282 544556007622 Predicted transcriptional regulator [Transcription]; Region: COG1959 544556007623 spermidine synthase; Provisional; Region: PRK00811 544556007624 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 544556007625 S-adenosylmethionine binding site [chemical binding]; other site 544556007626 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 544556007627 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 544556007628 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 544556007629 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 544556007630 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 544556007631 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 544556007632 catalytic residue [active] 544556007633 Probable transposase; Region: OrfB_IS605; pfam01385 544556007634 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 544556007635 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 544556007636 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 544556007637 active site 544556007638 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 544556007639 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 544556007640 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 544556007641 DNA-binding site [nucleotide binding]; DNA binding site 544556007642 UTRA domain; Region: UTRA; pfam07702 544556007643 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 544556007644 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 544556007645 Ca binding site [ion binding]; other site 544556007646 active site 544556007647 catalytic site [active] 544556007648 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 544556007649 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 544556007650 active site turn [active] 544556007651 phosphorylation site [posttranslational modification] 544556007652 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 544556007653 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 544556007654 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg1; cd04764 544556007655 DNA binding residues [nucleotide binding] 544556007656 PilZ domain; Region: PilZ; pfam07238 544556007657 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 544556007658 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 544556007659 CAP-like domain; other site 544556007660 active site 544556007661 primary dimer interface [polypeptide binding]; other site 544556007662 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 544556007663 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 544556007664 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 544556007665 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 544556007666 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 544556007667 ATP binding site [chemical binding]; other site 544556007668 Mg2+ binding site [ion binding]; other site 544556007669 G-X-G motif; other site 544556007670 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 544556007671 anchoring element; other site 544556007672 dimer interface [polypeptide binding]; other site 544556007673 ATP binding site [chemical binding]; other site 544556007674 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 544556007675 active site 544556007676 putative metal-binding site [ion binding]; other site 544556007677 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 544556007678 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 544556007679 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 544556007680 ABC1 family; Region: ABC1; pfam03109 544556007681 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 544556007682 active site 544556007683 ATP binding site [chemical binding]; other site 544556007684 Uncharacterized conserved protein [Function unknown]; Region: COG3937 544556007685 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 544556007686 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 544556007687 metal-binding site [ion binding] 544556007688 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 544556007689 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 544556007690 putative substrate binding pocket [chemical binding]; other site 544556007691 AC domain interface; other site 544556007692 catalytic triad [active] 544556007693 AB domain interface; other site 544556007694 interchain disulfide; other site 544556007695 Predicted membrane protein [Function unknown]; Region: COG3817 544556007696 Protein of unknown function (DUF979); Region: DUF979; pfam06166 544556007697 Protein of unknown function (DUF969); Region: DUF969; pfam06149 544556007698 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 544556007699 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 544556007700 Moco binding site; other site 544556007701 metal coordination site [ion binding]; other site 544556007702 Predicted membrane protein [Function unknown]; Region: COG3601 544556007703 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 544556007704 threonine synthase; Validated; Region: PRK08197 544556007705 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 544556007706 homodimer interface [polypeptide binding]; other site 544556007707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556007708 catalytic residue [active] 544556007709 peptidase T; Region: peptidase-T; TIGR01882 544556007710 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 544556007711 metal binding site [ion binding]; metal-binding site 544556007712 dimer interface [polypeptide binding]; other site 544556007713 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 544556007714 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 544556007715 Nitrogen regulatory protein P-II; Region: P-II; smart00938 544556007716 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 544556007717 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 544556007718 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 544556007719 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 544556007720 S-adenosylmethionine binding site [chemical binding]; other site 544556007721 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 544556007722 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 544556007723 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 544556007724 active site 544556007725 catalytic triad [active] 544556007726 oxyanion hole [active] 544556007727 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 544556007728 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 544556007729 Cu(I) binding site [ion binding]; other site 544556007730 EDD domain protein, DegV family; Region: DegV; TIGR00762 544556007731 Protein of unknown function (DUF2535); Region: DUF2535; pfam10751 544556007732 threonine dehydratase; Validated; Region: PRK08639 544556007733 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 544556007734 tetramer interface [polypeptide binding]; other site 544556007735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556007736 catalytic residue [active] 544556007737 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 544556007738 putative Ile/Val binding site [chemical binding]; other site 544556007739 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 544556007740 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 544556007741 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 544556007742 folate binding site [chemical binding]; other site 544556007743 NADP+ binding site [chemical binding]; other site 544556007744 thymidylate synthase; Reviewed; Region: thyA; PRK01827 544556007745 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 544556007746 dimerization interface [polypeptide binding]; other site 544556007747 active site 544556007748 YpjP-like protein; Region: YpjP; pfam14005 544556007749 aspartate aminotransferase; Provisional; Region: PRK07681 544556007750 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 544556007751 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556007752 homodimer interface [polypeptide binding]; other site 544556007753 catalytic residue [active] 544556007754 YuzL-like protein; Region: YuzL; pfam14115 544556007755 Disulphide isomerase; Region: Disulph_isomer; pfam06491 544556007756 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 544556007757 nudix motif; other site 544556007758 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 544556007759 Virulence factor; Region: Virulence_fact; pfam13769 544556007760 HEAT repeats; Region: HEAT_2; pfam13646 544556007761 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 544556007762 HEAT repeats; Region: HEAT_2; pfam13646 544556007763 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 544556007764 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 544556007765 catalytic residues [active] 544556007766 dimer interface [polypeptide binding]; other site 544556007767 homoserine O-succinyltransferase; Provisional; Region: PRK05368 544556007768 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 544556007769 proposed active site lysine [active] 544556007770 conserved cys residue [active] 544556007771 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 544556007772 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 544556007773 active site 544556007774 SAM binding site [chemical binding]; other site 544556007775 homodimer interface [polypeptide binding]; other site 544556007776 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 544556007777 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 544556007778 putative dimer interface [polypeptide binding]; other site 544556007779 active site pocket [active] 544556007780 putative cataytic base [active] 544556007781 cobyric acid synthase; Provisional; Region: PRK00784 544556007782 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 544556007783 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 544556007784 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 544556007785 catalytic triad [active] 544556007786 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 544556007787 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 544556007788 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 544556007789 catalytic triad [active] 544556007790 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 544556007791 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 544556007792 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 544556007793 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 544556007794 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 544556007795 active site 544556007796 SAM binding site [chemical binding]; other site 544556007797 homodimer interface [polypeptide binding]; other site 544556007798 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 544556007799 active site 544556007800 SAM binding site [chemical binding]; other site 544556007801 homodimer interface [polypeptide binding]; other site 544556007802 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 544556007803 active site 544556007804 putative homodimer interface [polypeptide binding]; other site 544556007805 SAM binding site [chemical binding]; other site 544556007806 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 544556007807 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 544556007808 S-adenosylmethionine binding site [chemical binding]; other site 544556007809 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 544556007810 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 544556007811 Precorrin-8X methylmutase; Region: CbiC; pfam02570 544556007812 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 544556007813 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 544556007814 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 544556007815 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 544556007816 putative active site [active] 544556007817 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 544556007818 putative active site [active] 544556007819 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 544556007820 active site 544556007821 SAM binding site [chemical binding]; other site 544556007822 homodimer interface [polypeptide binding]; other site 544556007823 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 544556007824 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 544556007825 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 544556007826 Walker A/P-loop; other site 544556007827 ATP binding site [chemical binding]; other site 544556007828 Q-loop/lid; other site 544556007829 ABC transporter signature motif; other site 544556007830 Walker B; other site 544556007831 D-loop; other site 544556007832 H-loop/switch region; other site 544556007833 Cobalt transport protein; Region: CbiQ; cl00463 544556007834 cobalt transport protein CbiN; Provisional; Region: PRK02898 544556007835 cobalt transport protein CbiM; Validated; Region: PRK08319 544556007836 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 544556007837 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 544556007838 dimer interface [polypeptide binding]; other site 544556007839 [2Fe-2S] cluster binding site [ion binding]; other site 544556007840 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 544556007841 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 544556007842 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 544556007843 active site 544556007844 catalytic site [active] 544556007845 DNA topoisomerase III; Provisional; Region: PRK07726 544556007846 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 544556007847 active site 544556007848 putative interdomain interaction site [polypeptide binding]; other site 544556007849 putative metal-binding site [ion binding]; other site 544556007850 putative nucleotide binding site [chemical binding]; other site 544556007851 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 544556007852 domain I; other site 544556007853 DNA binding groove [nucleotide binding] 544556007854 phosphate binding site [ion binding]; other site 544556007855 domain II; other site 544556007856 domain III; other site 544556007857 nucleotide binding site [chemical binding]; other site 544556007858 catalytic site [active] 544556007859 domain IV; other site 544556007860 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 544556007861 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 544556007862 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 544556007863 active site 544556007864 catalytic tetrad [active] 544556007865 oligoendopeptidase F; Region: pepF; TIGR00181 544556007866 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 544556007867 active site 544556007868 Zn binding site [ion binding]; other site 544556007869 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 544556007870 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 544556007871 active site 544556007872 Isochorismatase family; Region: Isochorismatase; pfam00857 544556007873 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 544556007874 catalytic triad [active] 544556007875 conserved cis-peptide bond; other site 544556007876 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 544556007877 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 544556007878 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 544556007879 putative active site [active] 544556007880 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 544556007881 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 544556007882 TPR motif; other site 544556007883 binding surface 544556007884 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 544556007885 binding surface 544556007886 TPR motif; other site 544556007887 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 544556007888 binding surface 544556007889 TPR motif; other site 544556007890 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 544556007891 TPR motif; other site 544556007892 binding surface 544556007893 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 544556007894 TPR motif; other site 544556007895 binding surface 544556007896 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 544556007897 TPR motif; other site 544556007898 binding surface 544556007899 Esterase/lipase [General function prediction only]; Region: COG1647 544556007900 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 544556007901 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 544556007902 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 544556007903 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 544556007904 [4Fe-4S] binding site [ion binding]; other site 544556007905 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 544556007906 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 544556007907 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 544556007908 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 544556007909 molybdopterin cofactor binding site; other site 544556007910 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 544556007911 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 544556007912 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 544556007913 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 544556007914 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 544556007915 active site 544556007916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 544556007917 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 544556007918 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 544556007919 dimer interface [polypeptide binding]; other site 544556007920 phosphorylation site [posttranslational modification] 544556007921 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 544556007922 ATP binding site [chemical binding]; other site 544556007923 Mg2+ binding site [ion binding]; other site 544556007924 G-X-G motif; other site 544556007925 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 544556007926 active site 544556007927 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 544556007928 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 544556007929 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 544556007930 Predicted membrane protein [Function unknown]; Region: COG3689 544556007931 Predicted permeases [General function prediction only]; Region: COG0701 544556007932 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 544556007933 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 544556007934 active site 544556007935 phosphorylation site [posttranslational modification] 544556007936 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 544556007937 active site 544556007938 P-loop; other site 544556007939 phosphorylation site [posttranslational modification] 544556007940 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 544556007941 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 544556007942 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 544556007943 putative substrate binding site [chemical binding]; other site 544556007944 putative ATP binding site [chemical binding]; other site 544556007945 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 544556007946 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 544556007947 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 544556007948 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 544556007949 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 544556007950 metal binding site [ion binding]; metal-binding site 544556007951 active site 544556007952 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 544556007953 I-site; other site 544556007954 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 544556007955 Zn2+ binding site [ion binding]; other site 544556007956 Mg2+ binding site [ion binding]; other site 544556007957 putative addiction module antidote; Region: doc_partner; TIGR02609 544556007958 Fic/DOC family; Region: Fic; cl00960 544556007959 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 544556007960 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 544556007961 G1 box; other site 544556007962 GTP/Mg2+ binding site [chemical binding]; other site 544556007963 Switch I region; other site 544556007964 G2 box; other site 544556007965 G3 box; other site 544556007966 Switch II region; other site 544556007967 G4 box; other site 544556007968 G5 box; other site 544556007969 Nucleoside recognition; Region: Gate; pfam07670 544556007970 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 544556007971 Nucleoside recognition; Region: Gate; pfam07670 544556007972 FeoA domain; Region: FeoA; pfam04023 544556007973 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 544556007974 Sodium Bile acid symporter family; Region: SBF; pfam01758 544556007975 Endonuclease I; Region: Endonuclease_1; pfam04231 544556007976 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 544556007977 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 544556007978 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 544556007979 putative active site [active] 544556007980 putative metal binding site [ion binding]; other site 544556007981 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 544556007982 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 544556007983 DNA-binding site [nucleotide binding]; DNA binding site 544556007984 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 544556007985 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 544556007986 beta-galactosidase; Region: BGL; TIGR03356 544556007987 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 544556007988 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 544556007989 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 544556007990 active site 544556007991 methionine cluster; other site 544556007992 phosphorylation site [posttranslational modification] 544556007993 metal binding site [ion binding]; metal-binding site 544556007994 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 544556007995 active site 544556007996 P-loop; other site 544556007997 phosphorylation site [posttranslational modification] 544556007998 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 544556007999 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 544556008000 DNA binding residues [nucleotide binding] 544556008001 putative dimer interface [polypeptide binding]; other site 544556008002 Protein of unknown function (DUF3940); Region: DUF3940; pfam13076 544556008003 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 544556008004 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 544556008005 putative substrate translocation pore; other site 544556008006 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 544556008007 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 544556008008 [4Fe-4S] binding site [ion binding]; other site 544556008009 molybdopterin cofactor binding site; other site 544556008010 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 544556008011 molybdopterin cofactor binding site; other site 544556008012 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 544556008013 [2Fe-2S] cluster binding site [ion binding]; other site 544556008014 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 544556008015 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 544556008016 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 544556008017 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 544556008018 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 544556008019 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 544556008020 DnaA N-terminal domain; Region: DnaA_N; pfam11638 544556008021 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 544556008022 active site 544556008023 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 544556008024 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 544556008025 putative active site [active] 544556008026 metal binding site [ion binding]; metal-binding site 544556008027 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 544556008028 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 544556008029 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 544556008030 putative active site [active] 544556008031 heme pocket [chemical binding]; other site 544556008032 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 544556008033 putative active site [active] 544556008034 heme pocket [chemical binding]; other site 544556008035 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 544556008036 Walker A motif; other site 544556008037 ATP binding site [chemical binding]; other site 544556008038 Walker B motif; other site 544556008039 arginine finger; other site 544556008040 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 544556008041 Nitronate monooxygenase; Region: NMO; pfam03060 544556008042 FMN binding site [chemical binding]; other site 544556008043 substrate binding site [chemical binding]; other site 544556008044 putative catalytic residue [active] 544556008045 Probable transposase; Region: OrfB_IS605; pfam01385 544556008046 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 544556008047 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 544556008048 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 544556008049 N- and C-terminal domain interface [polypeptide binding]; other site 544556008050 D-xylulose kinase; Region: XylB; TIGR01312 544556008051 active site 544556008052 MgATP binding site [chemical binding]; other site 544556008053 catalytic site [active] 544556008054 metal binding site [ion binding]; metal-binding site 544556008055 xylulose binding site [chemical binding]; other site 544556008056 homodimer interface [polypeptide binding]; other site 544556008057 xylose isomerase; Provisional; Region: PRK05474 544556008058 xylose isomerase; Region: xylose_isom_A; TIGR02630 544556008059 DDE superfamily endonuclease; Region: DDE_5; cl17874 544556008060 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556008061 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 544556008062 active site 544556008063 catalytic triad [active] 544556008064 oxyanion hole [active] 544556008065 Uncharacterized conserved protein [Function unknown]; Region: COG0327 544556008066 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 544556008067 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 544556008068 Predicted integral membrane protein [Function unknown]; Region: COG5578 544556008069 D-mannonate oxidoreductase; Provisional; Region: PRK08277 544556008070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 544556008071 NAD(P) binding site [chemical binding]; other site 544556008072 active site 544556008073 mannonate dehydratase; Provisional; Region: PRK03906 544556008074 mannonate dehydratase; Region: uxuA; TIGR00695 544556008075 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 544556008076 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556008077 Transcriptional regulators [Transcription]; Region: GntR; COG1802 544556008078 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 544556008079 DNA-binding site [nucleotide binding]; DNA binding site 544556008080 FCD domain; Region: FCD; pfam07729 544556008081 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 544556008082 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 544556008083 active site 544556008084 intersubunit interface [polypeptide binding]; other site 544556008085 catalytic residue [active] 544556008086 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 544556008087 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 544556008088 substrate binding site [chemical binding]; other site 544556008089 ATP binding site [chemical binding]; other site 544556008090 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 544556008091 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 544556008092 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 544556008093 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 544556008094 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 544556008095 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 544556008096 dimer interface [polypeptide binding]; other site 544556008097 conserved gate region; other site 544556008098 ABC-ATPase subunit interface; other site 544556008099 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 544556008100 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 544556008101 dimer interface [polypeptide binding]; other site 544556008102 conserved gate region; other site 544556008103 putative PBP binding loops; other site 544556008104 ABC-ATPase subunit interface; other site 544556008105 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 544556008106 D-aminoacylase, C-terminal region; Region: D-aminoacyl_C; pfam07908 544556008107 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 544556008108 Glycosyl hydrolase family 52; Region: Glyco_hydro_52; pfam03512 544556008109 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 544556008110 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 544556008111 NodB motif; other site 544556008112 active site 544556008113 catalytic site [active] 544556008114 metal binding site [ion binding]; metal-binding site 544556008115 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 544556008116 active site 544556008117 catalytic residues [active] 544556008118 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 544556008119 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 544556008120 dimer interface [polypeptide binding]; other site 544556008121 conserved gate region; other site 544556008122 putative PBP binding loops; other site 544556008123 ABC-ATPase subunit interface; other site 544556008124 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 544556008125 dimer interface [polypeptide binding]; other site 544556008126 putative PBP binding loops; other site 544556008127 ABC-ATPase subunit interface; other site 544556008128 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 544556008129 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 544556008130 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 544556008131 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556008132 Response regulator receiver domain; Region: Response_reg; pfam00072 544556008133 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 544556008134 active site 544556008135 phosphorylation site [posttranslational modification] 544556008136 intermolecular recognition site; other site 544556008137 dimerization interface [polypeptide binding]; other site 544556008138 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 544556008139 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 544556008140 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 544556008141 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 544556008142 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; cl01054 544556008143 Histidine kinase; Region: His_kinase; pfam06580 544556008144 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 544556008145 ATP binding site [chemical binding]; other site 544556008146 Mg2+ binding site [ion binding]; other site 544556008147 G-X-G motif; other site 544556008148 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 544556008149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 544556008150 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 544556008151 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 544556008152 active site 544556008153 metal binding site [ion binding]; metal-binding site 544556008154 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 544556008155 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 544556008156 active site 544556008157 motif I; other site 544556008158 motif II; other site 544556008159 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 544556008160 motif II; other site 544556008161 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 544556008162 active site 544556008163 catalytic residues [active] 544556008164 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 544556008165 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 544556008166 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 544556008167 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 544556008168 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 544556008169 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 544556008170 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 544556008171 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 544556008172 substrate binding site [chemical binding]; other site 544556008173 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 544556008174 active site 544556008175 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 544556008176 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 544556008177 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 544556008178 dimer interface [polypeptide binding]; other site 544556008179 conserved gate region; other site 544556008180 putative PBP binding loops; other site 544556008181 ABC-ATPase subunit interface; other site 544556008182 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 544556008183 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 544556008184 dimer interface [polypeptide binding]; other site 544556008185 putative PBP binding loops; other site 544556008186 ABC-ATPase subunit interface; other site 544556008187 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 544556008188 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 544556008189 Glycosyl hydrolase family 43; Region: GH43_ABN; cd08988 544556008190 substrate binding site [chemical binding]; other site 544556008191 active site 544556008192 alpha-galactosidase; Region: PLN02808; cl17638 544556008193 L-arabinose isomerase; Provisional; Region: PRK02929 544556008194 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 544556008195 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 544556008196 trimer interface [polypeptide binding]; other site 544556008197 putative substrate binding site [chemical binding]; other site 544556008198 putative metal binding site [ion binding]; other site 544556008199 ribulokinase; Provisional; Region: PRK04123 544556008200 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 544556008201 N- and C-terminal domain interface [polypeptide binding]; other site 544556008202 active site 544556008203 MgATP binding site [chemical binding]; other site 544556008204 catalytic site [active] 544556008205 metal binding site [ion binding]; metal-binding site 544556008206 carbohydrate binding site [chemical binding]; other site 544556008207 homodimer interface [polypeptide binding]; other site 544556008208 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 544556008209 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 544556008210 intersubunit interface [polypeptide binding]; other site 544556008211 active site 544556008212 Zn2+ binding site [ion binding]; other site 544556008213 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 544556008214 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 544556008215 DNA-binding site [nucleotide binding]; DNA binding site 544556008216 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 544556008217 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 544556008218 putative dimerization interface [polypeptide binding]; other site 544556008219 putative ligand binding site [chemical binding]; other site 544556008220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 544556008221 Integrase core domain; Region: rve; pfam00665 544556008222 transposase/IS protein; Provisional; Region: PRK09183 544556008223 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 544556008224 Walker A motif; other site 544556008225 ATP binding site [chemical binding]; other site 544556008226 Walker B motif; other site 544556008227 arginine finger; other site 544556008228 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 544556008229 putative substrate binding pocket [chemical binding]; other site 544556008230 AC domain interface; other site 544556008231 catalytic triad [active] 544556008232 AB domain interface; other site 544556008233 interchain disulfide; other site 544556008234 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 544556008235 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 544556008236 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 544556008237 peptide binding site [polypeptide binding]; other site 544556008238 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 544556008239 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 544556008240 Walker A/P-loop; other site 544556008241 ATP binding site [chemical binding]; other site 544556008242 Q-loop/lid; other site 544556008243 ABC transporter signature motif; other site 544556008244 Walker B; other site 544556008245 D-loop; other site 544556008246 H-loop/switch region; other site 544556008247 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 544556008248 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 544556008249 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 544556008250 Walker A/P-loop; other site 544556008251 ATP binding site [chemical binding]; other site 544556008252 Q-loop/lid; other site 544556008253 ABC transporter signature motif; other site 544556008254 Walker B; other site 544556008255 D-loop; other site 544556008256 H-loop/switch region; other site 544556008257 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 544556008258 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 544556008259 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 544556008260 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 544556008261 dimer interface [polypeptide binding]; other site 544556008262 conserved gate region; other site 544556008263 putative PBP binding loops; other site 544556008264 ABC-ATPase subunit interface; other site 544556008265 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 544556008266 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 544556008267 dimer interface [polypeptide binding]; other site 544556008268 conserved gate region; other site 544556008269 putative PBP binding loops; other site 544556008270 ABC-ATPase subunit interface; other site 544556008271 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 544556008272 SxDxEG motif; other site 544556008273 active site 544556008274 metal binding site [ion binding]; metal-binding site 544556008275 homopentamer interface [polypeptide binding]; other site 544556008276 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 544556008277 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 544556008278 putative DNA binding site [nucleotide binding]; other site 544556008279 putative Zn2+ binding site [ion binding]; other site 544556008280 AsnC family; Region: AsnC_trans_reg; pfam01037 544556008281 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 544556008282 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 544556008283 active site 544556008284 enoyl-CoA hydratase; Provisional; Region: PRK07659 544556008285 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 544556008286 substrate binding site [chemical binding]; other site 544556008287 oxyanion hole (OAH) forming residues; other site 544556008288 trimer interface [polypeptide binding]; other site 544556008289 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 544556008290 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 544556008291 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 544556008292 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 544556008293 NAD(P) binding site [chemical binding]; other site 544556008294 catalytic residues [active] 544556008295 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 544556008296 Na binding site [ion binding]; other site 544556008297 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 544556008298 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 544556008299 inhibitor-cofactor binding pocket; inhibition site 544556008300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556008301 catalytic residue [active] 544556008302 4-aminobutyrate aminotransferase; Reviewed; Region: PRK06918 544556008303 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 544556008304 inhibitor-cofactor binding pocket; inhibition site 544556008305 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556008306 catalytic residue [active] 544556008307 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 544556008308 PAS domain; Region: PAS_9; pfam13426 544556008309 putative active site [active] 544556008310 heme pocket [chemical binding]; other site 544556008311 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 544556008312 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 544556008313 Walker A motif; other site 544556008314 ATP binding site [chemical binding]; other site 544556008315 Walker B motif; other site 544556008316 arginine finger; other site 544556008317 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 544556008318 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 544556008319 agmatinase; Region: agmatinase; TIGR01230 544556008320 oligomer interface [polypeptide binding]; other site 544556008321 putative active site [active] 544556008322 Mn binding site [ion binding]; other site 544556008323 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 544556008324 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 544556008325 NAD(P) binding site [chemical binding]; other site 544556008326 catalytic residues [active] 544556008327 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 544556008328 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 544556008329 Na binding site [ion binding]; other site 544556008330 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 544556008331 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 544556008332 active site 544556008333 catalytic triad [active] 544556008334 dimer interface [polypeptide binding]; other site 544556008335 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 544556008336 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 544556008337 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 544556008338 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 544556008339 catalytic residue [active] 544556008340 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 544556008341 Major Facilitator Superfamily; Region: MFS_1; pfam07690 544556008342 putative substrate translocation pore; other site 544556008343 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 544556008344 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 544556008345 Coenzyme A binding pocket [chemical binding]; other site 544556008346 High-affinity nickel-transport protein; Region: NicO; cl00964 544556008347 UreD urease accessory protein; Region: UreD; cl00530 544556008348 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 544556008349 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 544556008350 UreF; Region: UreF; pfam01730 544556008351 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 544556008352 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 544556008353 dimer interface [polypeptide binding]; other site 544556008354 catalytic residues [active] 544556008355 urease subunit alpha; Reviewed; Region: ureC; PRK13207 544556008356 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 544556008357 subunit interactions [polypeptide binding]; other site 544556008358 active site 544556008359 flap region; other site 544556008360 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 544556008361 gamma-beta subunit interface [polypeptide binding]; other site 544556008362 alpha-beta subunit interface [polypeptide binding]; other site 544556008363 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 544556008364 alpha-gamma subunit interface [polypeptide binding]; other site 544556008365 beta-gamma subunit interface [polypeptide binding]; other site 544556008366 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 544556008367 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 544556008368 Walker A/P-loop; other site 544556008369 ATP binding site [chemical binding]; other site 544556008370 Q-loop/lid; other site 544556008371 ABC transporter signature motif; other site 544556008372 Walker B; other site 544556008373 D-loop; other site 544556008374 H-loop/switch region; other site 544556008375 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 544556008376 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 544556008377 Walker A/P-loop; other site 544556008378 ATP binding site [chemical binding]; other site 544556008379 Q-loop/lid; other site 544556008380 ABC transporter signature motif; other site 544556008381 Walker B; other site 544556008382 D-loop; other site 544556008383 H-loop/switch region; other site 544556008384 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 544556008385 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 544556008386 TM-ABC transporter signature motif; other site 544556008387 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 544556008388 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 544556008389 TM-ABC transporter signature motif; other site 544556008390 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 544556008391 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 544556008392 putative ligand binding site [chemical binding]; other site 544556008393 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 544556008394 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 544556008395 dimer interface [polypeptide binding]; other site 544556008396 putative CheW interface [polypeptide binding]; other site 544556008397 Cache domain; Region: Cache_1; pfam02743 544556008398 fructuronate transporter; Provisional; Region: PRK10034; cl15264 544556008399 GntP family permease; Region: GntP_permease; pfam02447 544556008400 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 544556008401 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 544556008402 N- and C-terminal domain interface [polypeptide binding]; other site 544556008403 active site 544556008404 carbohydrate binding site [chemical binding]; other site 544556008405 ATP binding site [chemical binding]; other site 544556008406 Transcriptional regulators [Transcription]; Region: PurR; COG1609 544556008407 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 544556008408 DNA binding site [nucleotide binding] 544556008409 domain linker motif; other site 544556008410 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 544556008411 putative dimerization interface [polypeptide binding]; other site 544556008412 putative ligand binding site [chemical binding]; other site 544556008413 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 544556008414 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 544556008415 Predicted permeases [General function prediction only]; Region: COG0679 544556008416 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 544556008417 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 544556008418 active site 544556008419 phosphorylation site [posttranslational modification] 544556008420 intermolecular recognition site; other site 544556008421 dimerization interface [polypeptide binding]; other site 544556008422 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 544556008423 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 544556008424 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 544556008425 putative active site [active] 544556008426 heme pocket [chemical binding]; other site 544556008427 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 544556008428 ATP binding site [chemical binding]; other site 544556008429 Mg2+ binding site [ion binding]; other site 544556008430 G-X-G motif; other site 544556008431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 544556008432 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 544556008433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 544556008434 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 544556008435 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 544556008436 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 544556008437 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 544556008438 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 544556008439 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 544556008440 active site 544556008441 phosphorylation site [posttranslational modification] 544556008442 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 544556008443 HTH domain; Region: HTH_11; pfam08279 544556008444 PRD domain; Region: PRD; pfam00874 544556008445 PRD domain; Region: PRD; pfam00874 544556008446 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 544556008447 active site 544556008448 P-loop; other site 544556008449 phosphorylation site [posttranslational modification] 544556008450 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 544556008451 active site 544556008452 phosphorylation site [posttranslational modification] 544556008453 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 544556008454 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556008455 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 544556008456 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 544556008457 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 544556008458 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 544556008459 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 544556008460 tetrameric interface [polypeptide binding]; other site 544556008461 NAD binding site [chemical binding]; other site 544556008462 catalytic residues [active] 544556008463 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 544556008464 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 544556008465 active site 544556008466 NAD binding site [chemical binding]; other site 544556008467 metal binding site [ion binding]; metal-binding site 544556008468 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 544556008469 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 544556008470 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 544556008471 Walker A motif; other site 544556008472 ATP binding site [chemical binding]; other site 544556008473 Walker B motif; other site 544556008474 arginine finger; other site 544556008475 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 544556008476 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 544556008477 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 544556008478 active site 544556008479 catalytic tetrad [active] 544556008480 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 544556008481 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 544556008482 Walker A/P-loop; other site 544556008483 ATP binding site [chemical binding]; other site 544556008484 Q-loop/lid; other site 544556008485 ABC transporter signature motif; other site 544556008486 Walker B; other site 544556008487 D-loop; other site 544556008488 H-loop/switch region; other site 544556008489 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 544556008490 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 544556008491 substrate binding pocket [chemical binding]; other site 544556008492 membrane-bound complex binding site; other site 544556008493 hinge residues; other site 544556008494 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 544556008495 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 544556008496 dimer interface [polypeptide binding]; other site 544556008497 conserved gate region; other site 544556008498 putative PBP binding loops; other site 544556008499 ABC-ATPase subunit interface; other site 544556008500 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 544556008501 dimer interface [polypeptide binding]; other site 544556008502 conserved gate region; other site 544556008503 putative PBP binding loops; other site 544556008504 ABC-ATPase subunit interface; other site 544556008505 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 544556008506 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 544556008507 ATP binding site [chemical binding]; other site 544556008508 G-X-G motif; other site 544556008509 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 544556008510 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 544556008511 active site 544556008512 phosphorylation site [posttranslational modification] 544556008513 intermolecular recognition site; other site 544556008514 dimerization interface [polypeptide binding]; other site 544556008515 YcbB domain; Region: YcbB; pfam08664 544556008516 Uncharacterized conserved protein [Function unknown]; Region: COG3589 544556008517 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 544556008518 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 544556008519 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 544556008520 active site turn [active] 544556008521 phosphorylation site [posttranslational modification] 544556008522 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 544556008523 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 544556008524 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 544556008525 putative active site [active] 544556008526 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 544556008527 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 544556008528 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 544556008529 putative active site [active] 544556008530 Uncharacterized conserved protein [Function unknown]; Region: COG2353 544556008531 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 544556008532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 544556008533 NAD(P) binding site [chemical binding]; other site 544556008534 active site 544556008535 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 544556008536 aromatic arch; other site 544556008537 DCoH dimer interaction site [polypeptide binding]; other site 544556008538 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 544556008539 DCoH tetramer interaction site [polypeptide binding]; other site 544556008540 substrate binding site [chemical binding]; other site 544556008541 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 544556008542 putative active site [active] 544556008543 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 544556008544 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 544556008545 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 544556008546 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 544556008547 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 544556008548 active site 544556008549 catalytic triad [active] 544556008550 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 544556008551 Sodium Bile acid symporter family; Region: SBF; cl17470 544556008552 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 544556008553 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 544556008554 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 544556008555 active site 544556008556 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 544556008557 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 544556008558 active site 544556008559 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 544556008560 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 544556008561 dimer interface [polypeptide binding]; other site 544556008562 acyl-activating enzyme (AAE) consensus motif; other site 544556008563 putative active site [active] 544556008564 putative AMP binding site [chemical binding]; other site 544556008565 putative CoA binding site [chemical binding]; other site 544556008566 chemical substrate binding site [chemical binding]; other site 544556008567 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 544556008568 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 544556008569 substrate binding site [chemical binding]; other site 544556008570 oxyanion hole (OAH) forming residues; other site 544556008571 trimer interface [polypeptide binding]; other site 544556008572 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 544556008573 Phenylacetic acid degradation B; Region: PaaB; cl01371 544556008574 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 544556008575 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 544556008576 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 544556008577 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 544556008578 Phenylacetic acid-responsive transcriptional repressor [Transcription]; Region: PaaX; COG3327 544556008579 PaaX-like protein; Region: PaaX; pfam07848 544556008580 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 544556008581 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 544556008582 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 544556008583 NAD(P) binding site [chemical binding]; other site 544556008584 catalytic residues [active] 544556008585 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 544556008586 Probable transposase; Region: OrfB_IS605; pfam01385 544556008587 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 544556008588 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 544556008589 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 544556008590 active site 544556008591 catalytic site [active] 544556008592 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 544556008593 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 544556008594 putative active site [active] 544556008595 putative metal binding site [ion binding]; other site 544556008596 Protein of unknown function (DUF1633); Region: DUF1633; pfam07794 544556008597 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 544556008598 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 544556008599 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 544556008600 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 544556008601 dimer interface [polypeptide binding]; other site 544556008602 conserved gate region; other site 544556008603 putative PBP binding loops; other site 544556008604 ABC-ATPase subunit interface; other site 544556008605 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 544556008606 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 544556008607 dimer interface [polypeptide binding]; other site 544556008608 conserved gate region; other site 544556008609 putative PBP binding loops; other site 544556008610 ABC-ATPase subunit interface; other site 544556008611 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 544556008612 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 544556008613 Walker A/P-loop; other site 544556008614 ATP binding site [chemical binding]; other site 544556008615 Q-loop/lid; other site 544556008616 ABC transporter signature motif; other site 544556008617 Walker B; other site 544556008618 D-loop; other site 544556008619 H-loop/switch region; other site 544556008620 TOBE domain; Region: TOBE_2; pfam08402 544556008621 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 544556008622 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 544556008623 putative substrate translocation pore; other site 544556008624 POT family; Region: PTR2; pfam00854 544556008625 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 544556008626 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 544556008627 trimer interface [polypeptide binding]; other site 544556008628 putative metal binding site [ion binding]; other site 544556008629 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 544556008630 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 544556008631 alpha subunit interface [polypeptide binding]; other site 544556008632 TPP binding site [chemical binding]; other site 544556008633 heterodimer interface [polypeptide binding]; other site 544556008634 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 544556008635 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 544556008636 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 544556008637 TPP-binding site [chemical binding]; other site 544556008638 tetramer interface [polypeptide binding]; other site 544556008639 heterodimer interface [polypeptide binding]; other site 544556008640 phosphorylation loop region [posttranslational modification] 544556008641 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 544556008642 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 544556008643 Walker A/P-loop; other site 544556008644 ATP binding site [chemical binding]; other site 544556008645 Q-loop/lid; other site 544556008646 ABC transporter signature motif; other site 544556008647 Walker B; other site 544556008648 D-loop; other site 544556008649 H-loop/switch region; other site 544556008650 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 544556008651 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 544556008652 TM-ABC transporter signature motif; other site 544556008653 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 544556008654 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 544556008655 zinc binding site [ion binding]; other site 544556008656 putative ligand binding site [chemical binding]; other site 544556008657 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 544556008658 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 544556008659 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 544556008660 NAD binding site [chemical binding]; other site 544556008661 Phe binding site; other site 544556008662 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 544556008663 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 544556008664 FMN binding site [chemical binding]; other site 544556008665 substrate binding site [chemical binding]; other site 544556008666 putative catalytic residue [active] 544556008667 PaaX-like protein; Region: PaaX; pfam07848 544556008668 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 544556008669 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 544556008670 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 544556008671 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 544556008672 dimer interface [polypeptide binding]; other site 544556008673 active site 544556008674 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK09260 544556008675 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 544556008676 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 544556008677 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 544556008678 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 544556008679 NAD(P) binding site [chemical binding]; other site 544556008680 catalytic residues [active] 544556008681 enoyl-CoA hydratase; Provisional; Region: PRK08140 544556008682 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 544556008683 substrate binding site [chemical binding]; other site 544556008684 oxyanion hole (OAH) forming residues; other site 544556008685 trimer interface [polypeptide binding]; other site 544556008686 enoyl-CoA hydratase; Provisional; Region: PRK05862 544556008687 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 544556008688 substrate binding site [chemical binding]; other site 544556008689 oxyanion hole (OAH) forming residues; other site 544556008690 trimer interface [polypeptide binding]; other site 544556008691 conserved hypothetical protein; Region: TIGR02118 544556008692 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 544556008693 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 544556008694 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 544556008695 Phenylacetic acid degradation B; Region: PaaB; cl01371 544556008696 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 544556008697 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 544556008698 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 544556008699 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 544556008700 acyl-activating enzyme (AAE) consensus motif; other site 544556008701 AMP binding site [chemical binding]; other site 544556008702 active site 544556008703 CoA binding site [chemical binding]; other site 544556008704 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 544556008705 gamma-glutamyl kinase; Provisional; Region: PRK05429 544556008706 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 544556008707 nucleotide binding site [chemical binding]; other site 544556008708 homotetrameric interface [polypeptide binding]; other site 544556008709 putative phosphate binding site [ion binding]; other site 544556008710 putative allosteric binding site; other site 544556008711 PUA domain; Region: PUA; pfam01472 544556008712 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 544556008713 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 544556008714 putative catalytic cysteine [active] 544556008715 Predicted membrane protein [Function unknown]; Region: COG2246 544556008716 GtrA-like protein; Region: GtrA; pfam04138 544556008717 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 544556008718 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 544556008719 Ligand binding site; other site 544556008720 Putative Catalytic site; other site 544556008721 DXD motif; other site 544556008722 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 544556008723 phosphodiesterase; Provisional; Region: PRK12704 544556008724 shikimate kinase; Reviewed; Region: aroK; PRK00131 544556008725 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 544556008726 ADP binding site [chemical binding]; other site 544556008727 magnesium binding site [ion binding]; other site 544556008728 putative shikimate binding site; other site 544556008729 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 544556008730 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 544556008731 active site 544556008732 catalytic residue [active] 544556008733 dimer interface [polypeptide binding]; other site 544556008734 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 544556008735 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 544556008736 active site 544556008737 motif I; other site 544556008738 motif II; other site 544556008739 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 544556008740 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 544556008741 Predicted membrane protein [Function unknown]; Region: COG2510 544556008742 CobD/Cbib protein; Region: CobD_Cbib; cl00561 544556008743 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 544556008744 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 544556008745 putative di-iron ligands [ion binding]; other site 544556008746 Domain of unknown function DUF302; Region: DUF302; cl01364 544556008747 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 544556008748 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 544556008749 CPxP motif; other site 544556008750 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 544556008751 active site residue [active] 544556008752 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 544556008753 active site residue [active] 544556008754 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 544556008755 active site residue [active] 544556008756 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 544556008757 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 544556008758 CPxP motif; other site 544556008759 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 544556008760 putative homodimer interface [polypeptide binding]; other site 544556008761 putative homotetramer interface [polypeptide binding]; other site 544556008762 putative metal binding site [ion binding]; other site 544556008763 putative homodimer-homodimer interface [polypeptide binding]; other site 544556008764 putative allosteric switch controlling residues; other site 544556008765 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 544556008766 active site residue [active] 544556008767 Methyltransferase domain; Region: Methyltransf_31; pfam13847 544556008768 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 544556008769 S-adenosylmethionine binding site [chemical binding]; other site 544556008770 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 544556008771 active site residue [active] 544556008772 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 544556008773 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 544556008774 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 544556008775 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 544556008776 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556008777 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556008778 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 544556008779 active site 544556008780 Domain of unknown function (DUF202); Region: DUF202; pfam02656 544556008781 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 544556008782 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 544556008783 catalytic residues [active] 544556008784 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 544556008785 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 544556008786 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 544556008787 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 544556008788 Major Facilitator Superfamily; Region: MFS_1; pfam07690 544556008789 putative substrate translocation pore; other site 544556008790 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 544556008791 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 544556008792 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 544556008793 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 544556008794 active site 544556008795 phosphorylation site [posttranslational modification] 544556008796 intermolecular recognition site; other site 544556008797 dimerization interface [polypeptide binding]; other site 544556008798 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 544556008799 DNA binding residues [nucleotide binding] 544556008800 dimerization interface [polypeptide binding]; other site 544556008801 PAS domain S-box; Region: sensory_box; TIGR00229 544556008802 PAS domain; Region: PAS_8; pfam13188 544556008803 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 544556008804 Histidine kinase; Region: HisKA_3; pfam07730 544556008805 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 544556008806 ATP binding site [chemical binding]; other site 544556008807 Mg2+ binding site [ion binding]; other site 544556008808 G-X-G motif; other site 544556008809 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 544556008810 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 544556008811 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 544556008812 active site residue [active] 544556008813 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 544556008814 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 544556008815 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 544556008816 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 544556008817 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 544556008818 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 544556008819 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 544556008820 active site residue [active] 544556008821 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 544556008822 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 544556008823 putative substrate translocation pore; other site 544556008824 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 544556008825 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 544556008826 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 544556008827 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 544556008828 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 544556008829 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 544556008830 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 544556008831 active site 544556008832 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 544556008833 hypothetical protein; Provisional; Region: PRK02947 544556008834 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 544556008835 putative active site [active] 544556008836 Protein of unknown function (DUF1341); Region: DUF1341; cl06211 544556008837 Creatinine amidohydrolase; Region: Creatininase; pfam02633 544556008838 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 544556008839 active site 544556008840 substrate binding pocket [chemical binding]; other site 544556008841 homodimer interaction site [polypeptide binding]; other site 544556008842 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 544556008843 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 544556008844 active site 544556008845 P-loop; other site 544556008846 phosphorylation site [posttranslational modification] 544556008847 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 544556008848 active site 544556008849 phosphorylation site [posttranslational modification] 544556008850 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 544556008851 HTH domain; Region: HTH_11; pfam08279 544556008852 PRD domain; Region: PRD; pfam00874 544556008853 PRD domain; Region: PRD; pfam00874 544556008854 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 544556008855 active site 544556008856 P-loop; other site 544556008857 phosphorylation site [posttranslational modification] 544556008858 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 544556008859 active site 544556008860 phosphorylation site [posttranslational modification] 544556008861 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 544556008862 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556008863 DDE superfamily endonuclease; Region: DDE_5; cl17874 544556008864 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556008865 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 544556008866 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 544556008867 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 544556008868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556008869 catalytic residue [active] 544556008870 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 544556008871 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b3; cd09205 544556008872 PLD-like domain; Region: PLDc_2; pfam13091 544556008873 putative homodimer interface [polypeptide binding]; other site 544556008874 putative active site [active] 544556008875 catalytic site [active] 544556008876 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 544556008877 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 544556008878 ATP binding site [chemical binding]; other site 544556008879 putative Mg++ binding site [ion binding]; other site 544556008880 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 544556008881 nucleotide binding region [chemical binding]; other site 544556008882 ATP-binding site [chemical binding]; other site 544556008883 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 544556008884 metal binding site [ion binding]; metal-binding site 544556008885 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 544556008886 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 544556008887 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 544556008888 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 544556008889 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 544556008890 conserved cys residue [active] 544556008891 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 544556008892 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 544556008893 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 544556008894 Transcriptional regulators [Transcription]; Region: PurR; COG1609 544556008895 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 544556008896 DNA binding site [nucleotide binding] 544556008897 domain linker motif; other site 544556008898 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 544556008899 dimerization interface [polypeptide binding]; other site 544556008900 ligand binding site [chemical binding]; other site 544556008901 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 544556008902 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 544556008903 Coenzyme A binding pocket [chemical binding]; other site 544556008904 metabolite-proton symporter; Region: 2A0106; TIGR00883 544556008905 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 544556008906 putative substrate translocation pore; other site 544556008907 MoaC_like Similar to the MaoC (monoamine oxidase C) dehydratase regulatory protein but without the N-terminal PutA domain. This protein family has a hot-dog fold similar to that of (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: MaoC_like; cd03446 544556008908 homodimer interaction site [polypeptide binding]; other site 544556008909 putative active site [active] 544556008910 putative catalytic site [active] 544556008911 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 544556008912 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 544556008913 dimer interface [polypeptide binding]; other site 544556008914 conserved gate region; other site 544556008915 putative PBP binding loops; other site 544556008916 ABC-ATPase subunit interface; other site 544556008917 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 544556008918 Apolipophorin-III precursor (apoLp-III); Region: ApoLp-III; pfam07464 544556008919 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 544556008920 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 544556008921 dimer interface [polypeptide binding]; other site 544556008922 conserved gate region; other site 544556008923 putative PBP binding loops; other site 544556008924 ABC-ATPase subunit interface; other site 544556008925 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 544556008926 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 544556008927 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 544556008928 glutaminase; Provisional; Region: PRK00971 544556008929 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 544556008930 putative active site [active] 544556008931 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 544556008932 putative active site [active] 544556008933 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 544556008934 Transposase; Region: DDE_Tnp_ISL3; pfam01610 544556008935 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 544556008936 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 544556008937 substrate-cofactor binding pocket; other site 544556008938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556008939 catalytic residue [active] 544556008940 acid-soluble spore protein H; Provisional; Region: sspH; PRK03174 544556008941 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 544556008942 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 544556008943 dimer interface [polypeptide binding]; other site 544556008944 putative metal binding site [ion binding]; other site 544556008945 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 544556008946 Predicted integral membrane protein [Function unknown]; Region: COG5658 544556008947 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 544556008948 SdpI/YhfL protein family; Region: SdpI; pfam13630 544556008949 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 544556008950 dimerization interface [polypeptide binding]; other site 544556008951 putative DNA binding site [nucleotide binding]; other site 544556008952 putative Zn2+ binding site [ion binding]; other site 544556008953 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 544556008954 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 544556008955 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 544556008956 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 544556008957 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 544556008958 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 544556008959 acyl-activating enzyme (AAE) consensus motif; other site 544556008960 AMP binding site [chemical binding]; other site 544556008961 active site 544556008962 CoA binding site [chemical binding]; other site 544556008963 Predicted membrane protein [Function unknown]; Region: COG2259 544556008964 pyruvate dehydrogenase E1 component beta subunit; Validated; Region: odpB; CHL00144 544556008965 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 544556008966 ABC transporter signature motif; other site 544556008967 Walker B; other site 544556008968 D-loop; other site 544556008969 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 544556008970 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 544556008971 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 544556008972 Walker A/P-loop; other site 544556008973 ATP binding site [chemical binding]; other site 544556008974 Q-loop/lid; other site 544556008975 ABC transporter signature motif; other site 544556008976 Walker B; other site 544556008977 D-loop; other site 544556008978 H-loop/switch region; other site 544556008979 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 544556008980 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 544556008981 Tetratricopeptide repeat; Region: TPR_12; pfam13424 544556008982 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 544556008983 binding surface 544556008984 TPR motif; other site 544556008985 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 544556008986 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556008987 Transposase; Region: DEDD_Tnp_IS110; pfam01548 544556008988 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 544556008989 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556008990 transglutaminase; Provisional; Region: tgl; PRK03187 544556008991 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 544556008992 EamA-like transporter family; Region: EamA; pfam00892 544556008993 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 544556008994 MgtC family; Region: MgtC; pfam02308 544556008995 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 544556008996 Staphylococcal nuclease homologues; Region: SNc; smart00318 544556008997 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 544556008998 Catalytic site; other site 544556008999 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 544556009000 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 544556009001 Coenzyme A binding pocket [chemical binding]; other site 544556009002 Small acid-soluble spore protein H family; Region: SspH; pfam08141 544556009003 Ion transport protein; Region: Ion_trans; pfam00520 544556009004 Ion channel; Region: Ion_trans_2; pfam07885 544556009005 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 544556009006 TrkA-N domain; Region: TrkA_N; pfam02254 544556009007 YugN-like family; Region: YugN; pfam08868 544556009008 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556009009 Transposase; Region: DEDD_Tnp_IS110; pfam01548 544556009010 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 544556009011 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 544556009012 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 544556009013 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 544556009014 active site 544556009015 dimer interface [polypeptide binding]; other site 544556009016 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 544556009017 dimer interface [polypeptide binding]; other site 544556009018 active site 544556009019 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 544556009020 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 544556009021 dimer interface [polypeptide binding]; other site 544556009022 active site 544556009023 metal binding site [ion binding]; metal-binding site 544556009024 Domain of unknown function (DUF378); Region: DUF378; pfam04070 544556009025 general stress protein 13; Validated; Region: PRK08059 544556009026 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 544556009027 RNA binding site [nucleotide binding]; other site 544556009028 hypothetical protein; Validated; Region: PRK07682 544556009029 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 544556009030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556009031 homodimer interface [polypeptide binding]; other site 544556009032 catalytic residue [active] 544556009033 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 544556009034 AsnC family; Region: AsnC_trans_reg; pfam01037 544556009035 Domain of unknown function (DUF1871); Region: DUF1871; pfam08958 544556009036 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 544556009037 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 544556009038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556009039 homodimer interface [polypeptide binding]; other site 544556009040 catalytic residue [active] 544556009041 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 544556009042 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 544556009043 E-class dimer interface [polypeptide binding]; other site 544556009044 P-class dimer interface [polypeptide binding]; other site 544556009045 active site 544556009046 Cu2+ binding site [ion binding]; other site 544556009047 Zn2+ binding site [ion binding]; other site 544556009048 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 544556009049 active site 544556009050 catalytic site [active] 544556009051 substrate binding site [chemical binding]; other site 544556009052 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 544556009053 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 544556009054 transmembrane helices; other site 544556009055 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 544556009056 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 544556009057 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 544556009058 multifunctional aminopeptidase A; Provisional; Region: PRK00913 544556009059 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 544556009060 interface (dimer of trimers) [polypeptide binding]; other site 544556009061 Substrate-binding/catalytic site; other site 544556009062 Zn-binding sites [ion binding]; other site 544556009063 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 544556009064 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 544556009065 cobalamin binding residues [chemical binding]; other site 544556009066 putative BtuC binding residues; other site 544556009067 dimer interface [polypeptide binding]; other site 544556009068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 544556009069 Putative membrane protein; Region: YuiB; pfam14068 544556009070 chaperone protein DnaJ; Provisional; Region: PRK14279 544556009071 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 544556009072 nudix motif; other site 544556009073 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 544556009074 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 544556009075 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 544556009076 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 544556009077 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 544556009078 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 544556009079 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 544556009080 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 544556009081 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 544556009082 hypothetical protein; Provisional; Region: PRK13669 544556009083 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 544556009084 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 544556009085 Protein of unknown function (DUF1462); Region: DUF1462; pfam07315 544556009086 NifU-like domain; Region: NifU; pfam01106 544556009087 homoserine kinase; Provisional; Region: PRK01212 544556009088 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 544556009089 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 544556009090 threonine synthase; Reviewed; Region: PRK06721 544556009091 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 544556009092 homodimer interface [polypeptide binding]; other site 544556009093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556009094 catalytic residue [active] 544556009095 homoserine dehydrogenase; Provisional; Region: PRK06349 544556009096 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 544556009097 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 544556009098 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 544556009099 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 544556009100 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 544556009101 dimerization interface [polypeptide binding]; other site 544556009102 ligand binding site [chemical binding]; other site 544556009103 NADP binding site [chemical binding]; other site 544556009104 catalytic site [active] 544556009105 spore coat protein YutH; Region: spore_yutH; TIGR02905 544556009106 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 544556009107 tetramer interfaces [polypeptide binding]; other site 544556009108 binuclear metal-binding site [ion binding]; other site 544556009109 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 544556009110 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 544556009111 active site 544556009112 motif I; other site 544556009113 motif II; other site 544556009114 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 544556009115 Uncharacterized conserved protein [Function unknown]; Region: COG2445 544556009116 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 544556009117 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 544556009118 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 544556009119 lipoyl synthase; Provisional; Region: PRK05481 544556009120 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 544556009121 FeS/SAM binding site; other site 544556009122 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 544556009123 Peptidase family M23; Region: Peptidase_M23; pfam01551 544556009124 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 544556009125 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 544556009126 Walker A/P-loop; other site 544556009127 ATP binding site [chemical binding]; other site 544556009128 Q-loop/lid; other site 544556009129 ABC transporter signature motif; other site 544556009130 Walker B; other site 544556009131 D-loop; other site 544556009132 H-loop/switch region; other site 544556009133 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 544556009134 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 544556009135 Walker A/P-loop; other site 544556009136 ATP binding site [chemical binding]; other site 544556009137 Q-loop/lid; other site 544556009138 ABC transporter signature motif; other site 544556009139 Walker B; other site 544556009140 D-loop; other site 544556009141 H-loop/switch region; other site 544556009142 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 544556009143 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 544556009144 TM-ABC transporter signature motif; other site 544556009145 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 544556009146 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 544556009147 TM-ABC transporter signature motif; other site 544556009148 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 544556009149 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 544556009150 putative ligand binding site [chemical binding]; other site 544556009151 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 544556009152 Uncharacterized conserved protein [Function unknown]; Region: COG3377 544556009153 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 544556009154 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 544556009155 active site 544556009156 metal binding site [ion binding]; metal-binding site 544556009157 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 544556009158 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 544556009159 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 544556009160 Protein of unknown function DUF72; Region: DUF72; pfam01904 544556009161 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 544556009162 transposase; Provisional; Region: PRK06526 544556009163 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 544556009164 Walker A motif; other site 544556009165 ATP binding site [chemical binding]; other site 544556009166 Walker B motif; other site 544556009167 arginine finger; other site 544556009168 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 544556009169 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 544556009170 non-specific DNA binding site [nucleotide binding]; other site 544556009171 salt bridge; other site 544556009172 sequence-specific DNA binding site [nucleotide binding]; other site 544556009173 Integrase core domain; Region: rve; pfam00665 544556009174 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 544556009175 FeS assembly protein SufB; Region: sufB; TIGR01980 544556009176 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 544556009177 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 544556009178 trimerization site [polypeptide binding]; other site 544556009179 active site 544556009180 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 544556009181 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 544556009182 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 544556009183 catalytic residue [active] 544556009184 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 544556009185 FeS assembly protein SufD; Region: sufD; TIGR01981 544556009186 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 544556009187 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 544556009188 Walker A/P-loop; other site 544556009189 ATP binding site [chemical binding]; other site 544556009190 Q-loop/lid; other site 544556009191 ABC transporter signature motif; other site 544556009192 Walker B; other site 544556009193 D-loop; other site 544556009194 H-loop/switch region; other site 544556009195 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 544556009196 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 544556009197 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 544556009198 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 544556009199 dimer interface [polypeptide binding]; other site 544556009200 conserved gate region; other site 544556009201 ABC-ATPase subunit interface; other site 544556009202 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 544556009203 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 544556009204 Walker A/P-loop; other site 544556009205 ATP binding site [chemical binding]; other site 544556009206 Q-loop/lid; other site 544556009207 ABC transporter signature motif; other site 544556009208 Walker B; other site 544556009209 D-loop; other site 544556009210 H-loop/switch region; other site 544556009211 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 544556009212 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 544556009213 catalytic residues [active] 544556009214 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 544556009215 putative active site [active] 544556009216 putative metal binding site [ion binding]; other site 544556009217 Protein of unknown function (DUF2553); Region: DUF2553; pfam10830 544556009218 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 544556009219 lipoyl attachment site [posttranslational modification]; other site 544556009220 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 544556009221 ArsC family; Region: ArsC; pfam03960 544556009222 putative ArsC-like catalytic residues; other site 544556009223 putative TRX-like catalytic residues [active] 544556009224 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 544556009225 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 544556009226 active site 544556009227 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 544556009228 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 544556009229 dimer interface [polypeptide binding]; other site 544556009230 active site 544556009231 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 544556009232 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 544556009233 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 544556009234 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 544556009235 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 544556009236 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 544556009237 substrate binding site [chemical binding]; other site 544556009238 oxyanion hole (OAH) forming residues; other site 544556009239 trimer interface [polypeptide binding]; other site 544556009240 YuzL-like protein; Region: YuzL; pfam14115 544556009241 Proline dehydrogenase; Region: Pro_dh; cl03282 544556009242 Coat F domain; Region: Coat_F; pfam07875 544556009243 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 544556009244 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 544556009245 inhibitor-cofactor binding pocket; inhibition site 544556009246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556009247 catalytic residue [active] 544556009248 AAA domain; Region: AAA_26; pfam13500 544556009249 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 544556009250 BioY family; Region: BioY; pfam02632 544556009251 pyruvate kinase; Provisional; Region: PRK14725 544556009252 active site 544556009253 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 544556009254 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 544556009255 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 544556009256 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 544556009257 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 544556009258 Walker A/P-loop; other site 544556009259 ATP binding site [chemical binding]; other site 544556009260 Q-loop/lid; other site 544556009261 ABC transporter signature motif; other site 544556009262 Walker B; other site 544556009263 D-loop; other site 544556009264 H-loop/switch region; other site 544556009265 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 544556009266 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 544556009267 Walker A/P-loop; other site 544556009268 ATP binding site [chemical binding]; other site 544556009269 Q-loop/lid; other site 544556009270 ABC transporter signature motif; other site 544556009271 Walker B; other site 544556009272 D-loop; other site 544556009273 H-loop/switch region; other site 544556009274 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 544556009275 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 544556009276 TM-ABC transporter signature motif; other site 544556009277 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 544556009278 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 544556009279 TM-ABC transporter signature motif; other site 544556009280 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 544556009281 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 544556009282 putative ligand binding site [chemical binding]; other site 544556009283 Transcriptional regulators [Transcription]; Region: FadR; COG2186 544556009284 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 544556009285 DNA-binding site [nucleotide binding]; DNA binding site 544556009286 FCD domain; Region: FCD; pfam07729 544556009287 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 544556009288 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 544556009289 NAD binding site [chemical binding]; other site 544556009290 catalytic residues [active] 544556009291 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 544556009292 putative substrate binding pocket [chemical binding]; other site 544556009293 trimer interface [polypeptide binding]; other site 544556009294 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 544556009295 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 544556009296 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 544556009297 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 544556009298 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 544556009299 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 544556009300 dimer interface [polypeptide binding]; other site 544556009301 active site 544556009302 catalytic residue [active] 544556009303 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 544556009304 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 544556009305 tetramer interface [polypeptide binding]; other site 544556009306 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 544556009307 tetramer interface [polypeptide binding]; other site 544556009308 active site 544556009309 metal binding site [ion binding]; metal-binding site 544556009310 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-1; TIGR02309 544556009311 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 544556009312 Transcriptional regulator [Transcription]; Region: LysR; COG0583 544556009313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 544556009314 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 544556009315 dimerization interface [polypeptide binding]; other site 544556009316 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 544556009317 dimanganese center [ion binding]; other site 544556009318 Protein of unknown function (DUF2642); Region: DUF2642; pfam10842 544556009319 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 544556009320 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 544556009321 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 544556009322 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 544556009323 DNA binding residues [nucleotide binding] 544556009324 dimerization interface [polypeptide binding]; other site 544556009325 Staygreen protein; Region: Staygreen; pfam12638 544556009326 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 544556009327 SmpB-tmRNA interface; other site 544556009328 ribonuclease R; Region: RNase_R; TIGR02063 544556009329 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 544556009330 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 544556009331 RNB domain; Region: RNB; pfam00773 544556009332 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 544556009333 RNA binding site [nucleotide binding]; other site 544556009334 Esterase/lipase [General function prediction only]; Region: COG1647 544556009335 Protein of unknown function (DUF677); Region: DUF677; pfam05055 544556009336 Preprotein translocase SecG subunit; Region: SecG; pfam03840 544556009337 Carboxylesterase family; Region: COesterase; pfam00135 544556009338 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 544556009339 substrate binding pocket [chemical binding]; other site 544556009340 catalytic triad [active] 544556009341 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 544556009342 enolase; Provisional; Region: eno; PRK00077 544556009343 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 544556009344 dimer interface [polypeptide binding]; other site 544556009345 metal binding site [ion binding]; metal-binding site 544556009346 substrate binding pocket [chemical binding]; other site 544556009347 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 544556009348 phosphoglyceromutase; Provisional; Region: PRK05434 544556009349 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 544556009350 triosephosphate isomerase; Provisional; Region: PRK14565 544556009351 substrate binding site [chemical binding]; other site 544556009352 dimer interface [polypeptide binding]; other site 544556009353 catalytic triad [active] 544556009354 Phosphoglycerate kinase; Region: PGK; pfam00162 544556009355 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 544556009356 substrate binding site [chemical binding]; other site 544556009357 hinge regions; other site 544556009358 ADP binding site [chemical binding]; other site 544556009359 catalytic site [active] 544556009360 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 544556009361 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 544556009362 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 544556009363 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 544556009364 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 544556009365 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 544556009366 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 544556009367 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 544556009368 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 544556009369 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 544556009370 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 544556009371 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 544556009372 oligomer interface [polypeptide binding]; other site 544556009373 active site residues [active] 544556009374 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 544556009375 dimerization domain swap beta strand [polypeptide binding]; other site 544556009376 regulatory protein interface [polypeptide binding]; other site 544556009377 active site 544556009378 regulatory phosphorylation site [posttranslational modification]; other site 544556009379 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 544556009380 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 544556009381 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 544556009382 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 544556009383 phosphate binding site [ion binding]; other site 544556009384 putative substrate binding pocket [chemical binding]; other site 544556009385 dimer interface [polypeptide binding]; other site 544556009386 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 544556009387 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 544556009388 putative active site [active] 544556009389 nucleotide binding site [chemical binding]; other site 544556009390 nudix motif; other site 544556009391 putative metal binding site [ion binding]; other site 544556009392 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 544556009393 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 544556009394 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 544556009395 TPR repeat; Region: TPR_11; pfam13414 544556009396 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 544556009397 binding surface 544556009398 TPR motif; other site 544556009399 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 544556009400 binding surface 544556009401 TPR motif; other site 544556009402 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 544556009403 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 544556009404 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 544556009405 metal binding site [ion binding]; metal-binding site 544556009406 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 544556009407 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 544556009408 substrate binding site [chemical binding]; other site 544556009409 glutamase interaction surface [polypeptide binding]; other site 544556009410 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 544556009411 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 544556009412 catalytic residues [active] 544556009413 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 544556009414 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 544556009415 putative active site [active] 544556009416 oxyanion strand; other site 544556009417 catalytic triad [active] 544556009418 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 544556009419 putative active site pocket [active] 544556009420 4-fold oligomerization interface [polypeptide binding]; other site 544556009421 metal binding residues [ion binding]; metal-binding site 544556009422 3-fold/trimer interface [polypeptide binding]; other site 544556009423 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 544556009424 histidinol dehydrogenase; Region: hisD; TIGR00069 544556009425 NAD binding site [chemical binding]; other site 544556009426 dimerization interface [polypeptide binding]; other site 544556009427 product binding site; other site 544556009428 substrate binding site [chemical binding]; other site 544556009429 zinc binding site [ion binding]; other site 544556009430 catalytic residues [active] 544556009431 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 544556009432 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 544556009433 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 544556009434 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 544556009435 dimer interface [polypeptide binding]; other site 544556009436 motif 1; other site 544556009437 active site 544556009438 motif 2; other site 544556009439 motif 3; other site 544556009440 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 544556009441 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 544556009442 putative active site [active] 544556009443 putative NTP binding site [chemical binding]; other site 544556009444 putative nucleic acid binding site [nucleotide binding]; other site 544556009445 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 544556009446 VanZ like family; Region: VanZ; pfam04892 544556009447 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 544556009448 Transposase; Region: DDE_Tnp_ISL3; pfam01610 544556009449 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 544556009450 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 544556009451 trimer interface [polypeptide binding]; other site 544556009452 active site 544556009453 substrate binding site [chemical binding]; other site 544556009454 CoA binding site [chemical binding]; other site 544556009455 pyrophosphatase PpaX; Provisional; Region: PRK13288 544556009456 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 544556009457 active site 544556009458 motif I; other site 544556009459 motif II; other site 544556009460 Nucleoside recognition; Region: Gate; pfam07670 544556009461 Nucleoside recognition; Region: Gate; pfam07670 544556009462 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 544556009463 HPr kinase/phosphorylase; Provisional; Region: PRK05428 544556009464 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 544556009465 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 544556009466 Hpr binding site; other site 544556009467 active site 544556009468 homohexamer subunit interaction site [polypeptide binding]; other site 544556009469 Predicted membrane protein [Function unknown]; Region: COG1950 544556009470 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 544556009471 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 544556009472 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 544556009473 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 544556009474 excinuclease ABC subunit B; Provisional; Region: PRK05298 544556009475 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 544556009476 ATP binding site [chemical binding]; other site 544556009477 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 544556009478 nucleotide binding region [chemical binding]; other site 544556009479 ATP-binding site [chemical binding]; other site 544556009480 Ultra-violet resistance protein B; Region: UvrB; pfam12344 544556009481 Uncharacterized protein conserved in bacteria (DUF2198); Region: DUF2198; pfam09964 544556009482 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 544556009483 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 544556009484 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 544556009485 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 544556009486 DNA binding residues [nucleotide binding] 544556009487 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 544556009488 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 544556009489 Ligand binding site; other site 544556009490 Putative Catalytic site; other site 544556009491 DXD motif; other site 544556009492 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 544556009493 C-terminal peptidase (prc); Region: prc; TIGR00225 544556009494 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 544556009495 protein binding site [polypeptide binding]; other site 544556009496 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 544556009497 Catalytic dyad [active] 544556009498 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 544556009499 Pirin-related protein [General function prediction only]; Region: COG1741 544556009500 Pirin; Region: Pirin; pfam02678 544556009501 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 544556009502 YusW-like protein; Region: YusW; pfam14039 544556009503 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 544556009504 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 544556009505 DNA binding residues [nucleotide binding] 544556009506 dimer interface [polypeptide binding]; other site 544556009507 mercury binding site [ion binding]; other site 544556009508 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 544556009509 metal-binding site [ion binding] 544556009510 mercuric reductase; Region: MerA; TIGR02053 544556009511 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 544556009512 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 544556009513 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 544556009514 MerE protein; Region: MerE; cl04911 544556009515 Protein-interacting V-domain of mammalian Alix and related domains; Region: V_Alix_like; cl14654 544556009516 Translation initiation factor eIF3 subunit; Region: eIF3_subunit; pfam08597 544556009517 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 544556009518 Peptidase family M23; Region: Peptidase_M23; pfam01551 544556009519 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 544556009520 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 544556009521 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 544556009522 ATP-binding cassette domain of the cell division transporter; Region: ABC_FtsE_transporter; cd03292 544556009523 Walker A/P-loop; other site 544556009524 ATP binding site [chemical binding]; other site 544556009525 Q-loop/lid; other site 544556009526 ABC transporter signature motif; other site 544556009527 Walker B; other site 544556009528 D-loop; other site 544556009529 H-loop/switch region; other site 544556009530 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 544556009531 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 544556009532 Uncharacterized conserved protein [Function unknown]; Region: COG1284 544556009533 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 544556009534 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 544556009535 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 544556009536 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 544556009537 peptide chain release factor 2; Validated; Region: prfB; PRK00578 544556009538 This domain is found in peptide chain release factors; Region: PCRF; smart00937 544556009539 RF-1 domain; Region: RF-1; pfam00472 544556009540 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 544556009541 DEAD/DEAH box helicase; Region: DEAD; pfam00270 544556009542 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 544556009543 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 544556009544 nucleotide binding region [chemical binding]; other site 544556009545 ATP-binding site [chemical binding]; other site 544556009546 Uncharacterized conserved protein (DUF2036); Region: DUF2036; pfam09724 544556009547 SEC-C motif; Region: SEC-C; pfam02810 544556009548 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 544556009549 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 544556009550 30S subunit binding site; other site 544556009551 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 544556009552 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 544556009553 Zn2+ binding site [ion binding]; other site 544556009554 Mg2+ binding site [ion binding]; other site 544556009555 Flagellar protein FliT; Region: FliT; pfam05400 544556009556 flagellar protein FliS; Validated; Region: fliS; PRK05685 544556009557 flagellar capping protein; Validated; Region: fliD; PRK07737 544556009558 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 544556009559 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 544556009560 flagellar protein FlaG; Provisional; Region: PRK07738 544556009561 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 544556009562 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 544556009563 inhibitor-cofactor binding pocket; inhibition site 544556009564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556009565 catalytic residue [active] 544556009566 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 544556009567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 544556009568 NAD(P) binding site [chemical binding]; other site 544556009569 active site 544556009570 pseudaminic acid synthase; Region: PseI; TIGR03586 544556009571 NeuB family; Region: NeuB; pfam03102 544556009572 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 544556009573 NeuB binding interface [polypeptide binding]; other site 544556009574 putative substrate binding site [chemical binding]; other site 544556009575 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 544556009576 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 544556009577 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 544556009578 ligand binding site; other site 544556009579 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 544556009580 HAD superfamily (subfamily IA) hydrolase, TIGR02253; Region: CTE7 544556009581 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 544556009582 motif II; other site 544556009583 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 544556009584 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 544556009585 UDP-galactopyranose mutase; Region: GLF; pfam03275 544556009586 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 544556009587 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 544556009588 Probable Catalytic site; other site 544556009589 metal-binding site 544556009590 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 544556009591 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 544556009592 Probable Catalytic site; other site 544556009593 metal-binding site 544556009594 Methyltransferase domain; Region: Methyltransf_24; pfam13578 544556009595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 544556009596 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 544556009597 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 544556009598 NAD(P) binding site [chemical binding]; other site 544556009599 homodimer interface [polypeptide binding]; other site 544556009600 substrate binding site [chemical binding]; other site 544556009601 active site 544556009602 flagellin; Provisional; Region: PRK12804 544556009603 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 544556009604 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 544556009605 carbon storage regulator; Provisional; Region: PRK01712 544556009606 flagellar assembly protein FliW; Provisional; Region: PRK13285 544556009607 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 544556009608 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 544556009609 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 544556009610 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 544556009611 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 544556009612 FlgN protein; Region: FlgN; pfam05130 544556009613 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 544556009614 flagellar operon protein TIGR03826; Region: YvyF 544556009615 Protein of unknown function (DUF327); Region: DUF327; pfam03885 544556009616 flagellin; Provisional; Region: PRK12804 544556009617 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 544556009618 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 544556009619 Flagellar protein FliS; Region: FliS; cl00654 544556009620 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 544556009621 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 544556009622 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 544556009623 active site 544556009624 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 544556009625 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 544556009626 ATP binding site [chemical binding]; other site 544556009627 putative Mg++ binding site [ion binding]; other site 544556009628 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 544556009629 nucleotide binding region [chemical binding]; other site 544556009630 ATP-binding site [chemical binding]; other site 544556009631 EDD domain protein, DegV family; Region: DegV; TIGR00762 544556009632 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 544556009633 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 544556009634 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 544556009635 active site 544556009636 phosphorylation site [posttranslational modification] 544556009637 intermolecular recognition site; other site 544556009638 dimerization interface [polypeptide binding]; other site 544556009639 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 544556009640 DNA binding residues [nucleotide binding] 544556009641 dimerization interface [polypeptide binding]; other site 544556009642 Sensor protein DegS; Region: DegS; pfam05384 544556009643 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 544556009644 Histidine kinase; Region: HisKA_3; pfam07730 544556009645 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 544556009646 ATP binding site [chemical binding]; other site 544556009647 Mg2+ binding site [ion binding]; other site 544556009648 G-X-G motif; other site 544556009649 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 544556009650 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 544556009651 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 544556009652 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 544556009653 Bacterial SH3 domain; Region: SH3_3; pfam08239 544556009654 Bacterial SH3 domain; Region: SH3_3; pfam08239 544556009655 Bacterial SH3 domain homologues; Region: SH3b; smart00287 544556009656 Bacterial SH3 domain; Region: SH3_3; pfam08239 544556009657 Bacterial SH3 domain; Region: SH3_3; pfam08239 544556009658 Bacterial SH3 domain homologues; Region: SH3b; smart00287 544556009659 Bacterial SH3 domain homologues; Region: SH3b; smart00287 544556009660 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 544556009661 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 544556009662 active site 544556009663 metal binding site [ion binding]; metal-binding site 544556009664 Bacterial SH3 domain; Region: SH3_3; cl17532 544556009665 Bacterial SH3 domain homologues; Region: SH3b; smart00287 544556009666 Stage II sporulation protein; Region: SpoIID; pfam08486 544556009667 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 544556009668 putative glycosyl transferase; Provisional; Region: PRK10307 544556009669 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 544556009670 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 544556009671 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 544556009672 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 544556009673 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 544556009674 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 544556009675 active site 544556009676 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 544556009677 homodimer interface [polypeptide binding]; other site 544556009678 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 544556009679 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 544556009680 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 544556009681 putative trimer interface [polypeptide binding]; other site 544556009682 putative CoA binding site [chemical binding]; other site 544556009683 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 544556009684 putative trimer interface [polypeptide binding]; other site 544556009685 putative active site [active] 544556009686 putative substrate binding site [chemical binding]; other site 544556009687 putative CoA binding site [chemical binding]; other site 544556009688 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 544556009689 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 544556009690 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 544556009691 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 544556009692 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 544556009693 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 544556009694 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 544556009695 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 544556009696 inhibitor-cofactor binding pocket; inhibition site 544556009697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 544556009698 catalytic residue [active] 544556009699 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 544556009700 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 544556009701 Mg++ binding site [ion binding]; other site 544556009702 putative catalytic motif [active] 544556009703 substrate binding site [chemical binding]; other site 544556009704 preprotein translocase subunit SecA; Reviewed; Region: PRK09200 544556009705 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 544556009706 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 544556009707 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 544556009708 nucleotide binding region [chemical binding]; other site 544556009709 ATP-binding site [chemical binding]; other site 544556009710 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 544556009711 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 544556009712 C-terminal peptidase (prc); Region: prc; TIGR00225 544556009713 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 544556009714 protein binding site [polypeptide binding]; other site 544556009715 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 544556009716 Catalytic dyad [active] 544556009717 Bacterial Ig-like domain; Region: Big_5; pfam13205 544556009718 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 544556009719 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 544556009720 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 544556009721 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 544556009722 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 544556009723 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 544556009724 X25 domain of Bacillus acidopullulyticus pullulanase and similar proteins; Region: X25_BaPul_like; cd12962 544556009725 X25 domain of Bacillus acidopullulyticus pullulanase and similar proteins; Region: X25_BaPul_like; cd12962 544556009726 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 544556009727 homodimer interface [polypeptide binding]; other site 544556009728 maltodextrin glucosidase; Provisional; Region: PRK10785 544556009729 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 544556009730 active site 544556009731 homodimer interface [polypeptide binding]; other site 544556009732 catalytic site [active] 544556009733 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 544556009734 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 544556009735 Interdomain contacts; other site 544556009736 Cytokine receptor motif; other site 544556009737 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 544556009738 Starch binding domain; Region: CBM_2; smart01065 544556009739 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 544556009740 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 544556009741 active site 544556009742 Na/Ca binding site [ion binding]; other site 544556009743 catalytic site [active] 544556009744 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 544556009745 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 544556009746 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 544556009747 active site 544556009748 metal binding site [ion binding]; metal-binding site 544556009749 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 544556009750 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 544556009751 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 544556009752 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 544556009753 Uncharacterized conserved protein [Function unknown]; Region: COG4127 544556009754 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556009755 Transposase IS4; Region: DDE_Tnp_1_7; pfam13843 544556009756 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 544556009757 Transposase; Region: DDE_Tnp_ISL3; pfam01610 544556009758 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 544556009759 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 544556009760 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 544556009761 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 544556009762 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 544556009763 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 544556009764 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 544556009765 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 544556009766 NlpC/P60 family; Region: NLPC_P60; pfam00877 544556009767 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 544556009768 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 544556009769 non-specific DNA binding site [nucleotide binding]; other site 544556009770 salt bridge; other site 544556009771 sequence-specific DNA binding site [nucleotide binding]; other site 544556009772 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 544556009773 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 544556009774 dimer interface [polypeptide binding]; other site 544556009775 ssDNA binding site [nucleotide binding]; other site 544556009776 tetramer (dimer of dimers) interface [polypeptide binding]; other site 544556009777 YwpF-like protein; Region: YwpF; pfam14183 544556009778 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 544556009779 active site 544556009780 catalytic site [active] 544556009781 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 544556009782 aspartate kinase; Reviewed; Region: PRK09034 544556009783 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 544556009784 putative catalytic residues [active] 544556009785 putative nucleotide binding site [chemical binding]; other site 544556009786 putative aspartate binding site [chemical binding]; other site 544556009787 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 544556009788 allosteric regulatory residue; other site 544556009789 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 544556009790 Protein of unknown function (DUF1284); Region: DUF1284; pfam06935 544556009791 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 544556009792 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 544556009793 NAD(P) binding site [chemical binding]; other site 544556009794 catalytic residues [active] 544556009795 Protein of unknown function (DUF779); Region: DUF779; pfam05610 544556009796 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 544556009797 Major Facilitator Superfamily; Region: MFS_1; pfam07690 544556009798 putative substrate translocation pore; other site 544556009799 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 544556009800 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 544556009801 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 544556009802 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 544556009803 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 544556009804 nucleotide binding site [chemical binding]; other site 544556009805 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 544556009806 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 544556009807 dimer interface [polypeptide binding]; other site 544556009808 conserved gate region; other site 544556009809 putative PBP binding loops; other site 544556009810 ABC-ATPase subunit interface; other site 544556009811 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 544556009812 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 544556009813 dimer interface [polypeptide binding]; other site 544556009814 conserved gate region; other site 544556009815 putative PBP binding loops; other site 544556009816 ABC-ATPase subunit interface; other site 544556009817 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 544556009818 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 544556009819 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 544556009820 Response regulator receiver domain; Region: Response_reg; pfam00072 544556009821 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 544556009822 active site 544556009823 phosphorylation site [posttranslational modification] 544556009824 intermolecular recognition site; other site 544556009825 dimerization interface [polypeptide binding]; other site 544556009826 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 544556009827 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 544556009828 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 544556009829 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 544556009830 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 544556009831 dimerization interface [polypeptide binding]; other site 544556009832 Histidine kinase; Region: His_kinase; pfam06580 544556009833 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 544556009834 ATP binding site [chemical binding]; other site 544556009835 Mg2+ binding site [ion binding]; other site 544556009836 G-X-G motif; other site 544556009837 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 544556009838 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 544556009839 ligand binding site [chemical binding]; other site 544556009840 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 544556009841 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 544556009842 NAD binding site [chemical binding]; other site 544556009843 sugar binding site [chemical binding]; other site 544556009844 divalent metal binding site [ion binding]; other site 544556009845 tetramer (dimer of dimers) interface [polypeptide binding]; other site 544556009846 dimer interface [polypeptide binding]; other site 544556009847 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 544556009848 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 544556009849 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 544556009850 putative active site [active] 544556009851 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 544556009852 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 544556009853 Walker A/P-loop; other site 544556009854 ATP binding site [chemical binding]; other site 544556009855 Q-loop/lid; other site 544556009856 ABC transporter signature motif; other site 544556009857 Walker B; other site 544556009858 D-loop; other site 544556009859 H-loop/switch region; other site 544556009860 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 544556009861 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 544556009862 FtsX-like permease family; Region: FtsX; pfam02687 544556009863 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 544556009864 FAD binding domain; Region: FAD_binding_4; pfam01565 544556009865 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 544556009866 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 544556009867 alpha subunit interface [polypeptide binding]; other site 544556009868 TPP binding site [chemical binding]; other site 544556009869 heterodimer interface [polypeptide binding]; other site 544556009870 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 544556009871 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 544556009872 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 544556009873 TPP-binding site [chemical binding]; other site 544556009874 tetramer interface [polypeptide binding]; other site 544556009875 heterodimer interface [polypeptide binding]; other site 544556009876 phosphorylation loop region [posttranslational modification] 544556009877 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 544556009878 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 544556009879 E3 interaction surface; other site 544556009880 lipoyl attachment site [posttranslational modification]; other site 544556009881 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 544556009882 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 544556009883 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 544556009884 putative metal binding site [ion binding]; other site 544556009885 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 544556009886 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 544556009887 Domain of unknown function (DUF4275); Region: DUF4275; pfam14101 544556009888 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 544556009889 Low molecular weight phosphatase family; Region: LMWPc; cd00115 544556009890 active site 544556009891 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 544556009892 arsenical-resistance protein; Region: acr3; TIGR00832 544556009893 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 544556009894 dimerization interface [polypeptide binding]; other site 544556009895 putative DNA binding site [nucleotide binding]; other site 544556009896 putative Zn2+ binding site [ion binding]; other site 544556009897 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 544556009898 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 544556009899 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 544556009900 ligand binding site [chemical binding]; other site 544556009901 dimerization interface [polypeptide binding]; other site 544556009902 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 544556009903 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 544556009904 TM-ABC transporter signature motif; other site 544556009905 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 544556009906 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 544556009907 Walker A/P-loop; other site 544556009908 ATP binding site [chemical binding]; other site 544556009909 Q-loop/lid; other site 544556009910 ABC transporter signature motif; other site 544556009911 Walker B; other site 544556009912 D-loop; other site 544556009913 H-loop/switch region; other site 544556009914 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 544556009915 D-ribose pyranase; Provisional; Region: PRK11797 544556009916 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 544556009917 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 544556009918 substrate binding site [chemical binding]; other site 544556009919 dimer interface [polypeptide binding]; other site 544556009920 ATP binding site [chemical binding]; other site 544556009921 Transcriptional regulators [Transcription]; Region: PurR; COG1609 544556009922 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 544556009923 DNA binding site [nucleotide binding] 544556009924 domain linker motif; other site 544556009925 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 544556009926 dimerization interface [polypeptide binding]; other site 544556009927 ligand binding site [chemical binding]; other site 544556009928 sodium binding site [ion binding]; other site 544556009929 Predicted integral membrane protein [Function unknown]; Region: COG5652 544556009930 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 544556009931 Na binding site [ion binding]; other site 544556009932 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 544556009933 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 544556009934 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 544556009935 metal binding site [ion binding]; metal-binding site 544556009936 dimer interface [polypeptide binding]; other site 544556009937 amidase, hydantoinase/carbamoylase family; Region: hydantase; TIGR01879 544556009938 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 544556009939 active site 544556009940 metal binding site [ion binding]; metal-binding site 544556009941 dimer interface [polypeptide binding]; other site 544556009942 Probable transposase; Region: OrfB_IS605; pfam01385 544556009943 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 544556009944 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 544556009945 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 544556009946 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 544556009947 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 544556009948 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 544556009949 Bacterial SH3 domain homologues; Region: SH3b; smart00287 544556009950 Bacterial SH3 domain; Region: SH3_3; pfam08239 544556009951 Bacterial SH3 domain; Region: SH3_3; pfam08239 544556009952 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 544556009953 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 544556009954 active site 544556009955 metal binding site [ion binding]; metal-binding site 544556009956 SEC-C motif; Region: SEC-C; pfam02810 544556009957 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 544556009958 SEC-C motif; Region: SEC-C; pfam02810 544556009959 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 544556009960 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556009961 SEC-C motif; Region: SEC-C; pfam02810 544556009962 SEC-C motif; Region: SEC-C; pfam02810 544556009963 Uncharacterized conserved protein [Function unknown]; Region: COG4715 544556009964 SNF2 Helicase protein; Region: DUF3670; pfam12419 544556009965 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 544556009966 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 544556009967 ATP binding site [chemical binding]; other site 544556009968 putative Mg++ binding site [ion binding]; other site 544556009969 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 544556009970 nucleotide binding region [chemical binding]; other site 544556009971 ATP-binding site [chemical binding]; other site 544556009972 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 544556009973 Macro domain, Unknown family 2. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases)...; Region: Macro_2; cd03330 544556009974 putative ADP-ribose binding site [chemical binding]; other site 544556009975 Uncharacterized conserved protein [Function unknown]; Region: COG3189 544556009976 AAA domain; Region: AAA_21; pfam13304 544556009977 AAA domain; Region: AAA_21; pfam13304 544556009978 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 544556009979 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 544556009980 active site 544556009981 tetramer interface; other site 544556009982 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 544556009983 active site 544556009984 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 544556009985 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 544556009986 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 544556009987 dimer interface [polypeptide binding]; other site 544556009988 conserved gate region; other site 544556009989 ABC-ATPase subunit interface; other site 544556009990 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 544556009991 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 544556009992 dimer interface [polypeptide binding]; other site 544556009993 conserved gate region; other site 544556009994 putative PBP binding loops; other site 544556009995 ABC-ATPase subunit interface; other site 544556009996 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 544556009997 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 544556009998 Transcriptional regulators [Transcription]; Region: PurR; COG1609 544556009999 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 544556010000 DNA binding site [nucleotide binding] 544556010001 domain linker motif; other site 544556010002 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_1; cd06277 544556010003 putative dimerization interface [polypeptide binding]; other site 544556010004 putative ligand binding site [chemical binding]; other site 544556010005 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 544556010006 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 544556010007 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 544556010008 EamA-like transporter family; Region: EamA; pfam00892 544556010009 EamA-like transporter family; Region: EamA; pfam00892 544556010010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 544556010011 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 544556010012 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 544556010013 Helix-turn-helix domain; Region: HTH_17; pfam12728 544556010014 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 544556010015 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 544556010016 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 544556010017 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 544556010018 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 544556010019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 544556010020 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556010021 Transposase IS4; Region: DDE_Tnp_1_7; pfam13843 544556010022 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 544556010023 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 544556010024 active site 544556010025 tetramer interface; other site 544556010026 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 544556010027 AAA domain; Region: AAA_21; pfam13304 544556010028 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 544556010029 membrane-bound transcriptional regulator LytR; Provisional; Region: PRK09379 544556010030 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 544556010031 active site 544556010032 oxyanion hole [active] 544556010033 catalytic triad [active] 544556010034 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 544556010035 Chain length determinant protein; Region: Wzz; cl15801 544556010036 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 544556010037 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 544556010038 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 544556010039 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 544556010040 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 544556010041 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 544556010042 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 544556010043 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 544556010044 rod shape-determining protein Mbl; Provisional; Region: PRK13928 544556010045 MreB and similar proteins; Region: MreB_like; cd10225 544556010046 nucleotide binding site [chemical binding]; other site 544556010047 Mg binding site [ion binding]; other site 544556010048 putative protofilament interaction site [polypeptide binding]; other site 544556010049 RodZ interaction site [polypeptide binding]; other site 544556010050 Stage III sporulation protein D; Region: SpoIIID; pfam12116 544556010051 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 544556010052 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 544556010053 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 544556010054 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 544556010055 Peptidase family M23; Region: Peptidase_M23; pfam01551 544556010056 stage II sporulation protein D; Region: spore_II_D; TIGR02870 544556010057 Stage II sporulation protein; Region: SpoIID; pfam08486 544556010058 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 544556010059 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 544556010060 hinge; other site 544556010061 active site 544556010062 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 544556010063 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 544556010064 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 544556010065 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 544556010066 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 544556010067 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 544556010068 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 544556010069 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 544556010070 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 544556010071 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 544556010072 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 544556010073 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 544556010074 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 544556010075 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 544556010076 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 544556010077 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 544556010078 NADH dehydrogenase subunit D; Provisional; Region: PRK12322 544556010079 NADH dehydrogenase subunit C; Validated; Region: PRK07735 544556010080 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 544556010081 NADH dehydrogenase subunit B; Validated; Region: PRK06411 544556010082 NADH dehydrogenase subunit A; Validated; Region: PRK07756 544556010083 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 544556010084 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 544556010085 gamma subunit interface [polypeptide binding]; other site 544556010086 epsilon subunit interface [polypeptide binding]; other site 544556010087 LBP interface [polypeptide binding]; other site 544556010088 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 544556010089 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 544556010090 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 544556010091 alpha subunit interaction interface [polypeptide binding]; other site 544556010092 Walker A motif; other site 544556010093 ATP binding site [chemical binding]; other site 544556010094 Walker B motif; other site 544556010095 inhibitor binding site; inhibition site 544556010096 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 544556010097 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 544556010098 core domain interface [polypeptide binding]; other site 544556010099 delta subunit interface [polypeptide binding]; other site 544556010100 epsilon subunit interface [polypeptide binding]; other site 544556010101 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 544556010102 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 544556010103 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 544556010104 beta subunit interaction interface [polypeptide binding]; other site 544556010105 Walker A motif; other site 544556010106 ATP binding site [chemical binding]; other site 544556010107 Walker B motif; other site 544556010108 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 544556010109 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 544556010110 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 544556010111 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 544556010112 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 544556010113 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 544556010114 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 544556010115 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 544556010116 ATP synthase I chain; Region: ATP_synt_I; cl09170 544556010117 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 544556010118 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 544556010119 active site 544556010120 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 544556010121 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 544556010122 dimer interface [polypeptide binding]; other site 544556010123 active site 544556010124 glycine-pyridoxal phosphate binding site [chemical binding]; other site 544556010125 folate binding site [chemical binding]; other site 544556010126 hypothetical protein; Provisional; Region: PRK13690 544556010127 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 544556010128 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 544556010129 dimerization interface [polypeptide binding]; other site 544556010130 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 544556010131 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 544556010132 dimer interface [polypeptide binding]; other site 544556010133 putative CheW interface [polypeptide binding]; other site 544556010134 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 544556010135 Low molecular weight phosphatase family; Region: LMWPc; cd00115 544556010136 active site 544556010137 Predicted membrane protein [Function unknown]; Region: COG1971 544556010138 Domain of unknown function DUF; Region: DUF204; pfam02659 544556010139 Domain of unknown function DUF; Region: DUF204; pfam02659 544556010140 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 544556010141 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 544556010142 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 544556010143 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 544556010144 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 544556010145 S-adenosylmethionine binding site [chemical binding]; other site 544556010146 peptide chain release factor 1; Validated; Region: prfA; PRK00591 544556010147 This domain is found in peptide chain release factors; Region: PCRF; smart00937 544556010148 RF-1 domain; Region: RF-1; pfam00472 544556010149 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 544556010150 thymidine kinase; Provisional; Region: PRK04296 544556010151 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 544556010152 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 544556010153 transcription termination factor Rho; Provisional; Region: rho; PRK09376 544556010154 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 544556010155 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 544556010156 RNA binding site [nucleotide binding]; other site 544556010157 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 544556010158 multimer interface [polypeptide binding]; other site 544556010159 Walker A motif; other site 544556010160 ATP binding site [chemical binding]; other site 544556010161 Walker B motif; other site 544556010162 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 544556010163 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 544556010164 putative active site [active] 544556010165 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 544556010166 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 544556010167 hinge; other site 544556010168 active site 544556010169 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 544556010170 active site 544556010171 intersubunit interactions; other site 544556010172 catalytic residue [active] 544556010173 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 544556010174 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 544556010175 intersubunit interface [polypeptide binding]; other site 544556010176 active site 544556010177 zinc binding site [ion binding]; other site 544556010178 Na+ binding site [ion binding]; other site 544556010179 Response regulator receiver domain; Region: Response_reg; pfam00072 544556010180 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 544556010181 active site 544556010182 phosphorylation site [posttranslational modification] 544556010183 intermolecular recognition site; other site 544556010184 dimerization interface [polypeptide binding]; other site 544556010185 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 544556010186 CTP synthetase; Validated; Region: pyrG; PRK05380 544556010187 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 544556010188 Catalytic site [active] 544556010189 active site 544556010190 UTP binding site [chemical binding]; other site 544556010191 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 544556010192 active site 544556010193 putative oxyanion hole; other site 544556010194 catalytic triad [active] 544556010195 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 544556010196 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 544556010197 B12 binding site [chemical binding]; other site 544556010198 cobalt ligand [ion binding]; other site 544556010199 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 544556010200 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 544556010201 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, unknown subfamily 1; composed of uncharacterized bacterial proteins containing a C-terminal MCM domain. MCM catalyzes the isomerization of methylmalonyl-CoA to succinyl-CoA. The...; Region: MM_CoA_mutase_1; cd03678 544556010202 putative active site [active] 544556010203 putative substrate binding site [chemical binding]; other site 544556010204 putative coenzyme B12 binding site [chemical binding]; other site 544556010205 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 544556010206 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 544556010207 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 544556010208 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 544556010209 FAD binding site [chemical binding]; other site 544556010210 homotetramer interface [polypeptide binding]; other site 544556010211 substrate binding pocket [chemical binding]; other site 544556010212 catalytic base [active] 544556010213 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 544556010214 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 544556010215 FAD binding site [chemical binding]; other site 544556010216 homotetramer interface [polypeptide binding]; other site 544556010217 substrate binding pocket [chemical binding]; other site 544556010218 catalytic base [active] 544556010219 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 544556010220 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 544556010221 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 544556010222 acetyl-CoA acetyltransferase; Provisional; Region: PRK08235 544556010223 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 544556010224 dimer interface [polypeptide binding]; other site 544556010225 active site 544556010226 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 544556010227 4Fe-4S binding domain; Region: Fer4; cl02805 544556010228 Cysteine-rich domain; Region: CCG; pfam02754 544556010229 Cysteine-rich domain; Region: CCG; pfam02754 544556010230 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 544556010231 PLD-like domain; Region: PLDc_2; pfam13091 544556010232 putative active site [active] 544556010233 catalytic site [active] 544556010234 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 544556010235 PLD-like domain; Region: PLDc_2; pfam13091 544556010236 putative active site [active] 544556010237 catalytic site [active] 544556010238 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 544556010239 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 544556010240 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 544556010241 active site 544556010242 HIGH motif; other site 544556010243 KMSK motif region; other site 544556010244 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 544556010245 tRNA binding surface [nucleotide binding]; other site 544556010246 anticodon binding site; other site 544556010247 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 544556010248 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 544556010249 agmatinase; Region: agmatinase; TIGR01230 544556010250 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 544556010251 putative active site [active] 544556010252 Mn binding site [ion binding]; other site 544556010253 spermidine synthase; Provisional; Region: PRK00811 544556010254 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 544556010255 Transglycosylase; Region: Transgly; pfam00912 544556010256 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 544556010257 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 544556010258 YwhD family; Region: YwhD; pfam08741 544556010259 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 544556010260 Peptidase family M50; Region: Peptidase_M50; pfam02163 544556010261 active site 544556010262 putative substrate binding region [chemical binding]; other site 544556010263 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 544556010264 active site 1 [active] 544556010265 dimer interface [polypeptide binding]; other site 544556010266 hexamer interface [polypeptide binding]; other site 544556010267 active site 2 [active] 544556010268 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 544556010269 Uncharacterized conserved protein [Function unknown]; Region: COG3465 544556010270 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 544556010271 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 544556010272 Zn2+ binding site [ion binding]; other site 544556010273 Mg2+ binding site [ion binding]; other site 544556010274 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 544556010275 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 544556010276 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 544556010277 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 544556010278 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 544556010279 putative heme peroxidase; Provisional; Region: PRK12276 544556010280 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 544556010281 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 544556010282 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; pfam09671 544556010283 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 544556010284 CAT RNA binding domain; Region: CAT_RBD; smart01061 544556010285 transcriptional antiterminator BglG; Provisional; Region: PRK09772 544556010286 PRD domain; Region: PRD; pfam00874 544556010287 PRD domain; Region: PRD; pfam00874 544556010288 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 544556010289 beta-galactosidase; Region: BGL; TIGR03356 544556010290 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 544556010291 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 544556010292 active site turn [active] 544556010293 phosphorylation site [posttranslational modification] 544556010294 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 544556010295 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 544556010296 HPr interaction site; other site 544556010297 glycerol kinase (GK) interaction site [polypeptide binding]; other site 544556010298 active site 544556010299 phosphorylation site [posttranslational modification] 544556010300 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 544556010301 ligand binding site [chemical binding]; other site 544556010302 active site 544556010303 UGI interface [polypeptide binding]; other site 544556010304 catalytic site [active] 544556010305 Uncharacterized conserved protein [Function unknown]; Region: COG3339 544556010306 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 544556010307 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 544556010308 anti sigma factor interaction site; other site 544556010309 regulatory phosphorylation site [posttranslational modification]; other site 544556010310 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 544556010311 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 544556010312 ATP binding site [chemical binding]; other site 544556010313 Mg2+ binding site [ion binding]; other site 544556010314 G-X-G motif; other site 544556010315 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 544556010316 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 544556010317 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 544556010318 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 544556010319 DNA binding residues [nucleotide binding] 544556010320 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 544556010321 PAS domain; Region: PAS_9; pfam13426 544556010322 putative active site [active] 544556010323 heme pocket [chemical binding]; other site 544556010324 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 544556010325 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 544556010326 PemK-like protein; Region: PemK; pfam02452 544556010327 azoreductase; Reviewed; Region: PRK00170 544556010328 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 544556010329 glycyl-tRNA synthetase; Provisional; Region: PRK04173 544556010330 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 544556010331 motif 1; other site 544556010332 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 544556010333 active site 544556010334 motif 2; other site 544556010335 motif 3; other site 544556010336 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 544556010337 anticodon binding site; other site 544556010338 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 544556010339 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 544556010340 active site 544556010341 benzoate transport; Region: 2A0115; TIGR00895 544556010342 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 544556010343 putative substrate translocation pore; other site 544556010344 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 544556010345 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 544556010346 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 544556010347 PBP superfamily domain; Region: PBP_like_2; cl17296 544556010348 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 544556010349 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 544556010350 dimer interface [polypeptide binding]; other site 544556010351 conserved gate region; other site 544556010352 putative PBP binding loops; other site 544556010353 ABC-ATPase subunit interface; other site 544556010354 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 544556010355 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 544556010356 dimer interface [polypeptide binding]; other site 544556010357 conserved gate region; other site 544556010358 putative PBP binding loops; other site 544556010359 ABC-ATPase subunit interface; other site 544556010360 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 544556010361 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 544556010362 substrate binding [chemical binding]; other site 544556010363 active site 544556010364 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 544556010365 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 544556010366 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 544556010367 active site turn [active] 544556010368 phosphorylation site [posttranslational modification] 544556010369 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 544556010370 transcriptional antiterminator BglG; Provisional; Region: PRK09772 544556010371 CAT RNA binding domain; Region: CAT_RBD; pfam03123 544556010372 PRD domain; Region: PRD; pfam00874 544556010373 PRD domain; Region: PRD; pfam00874 544556010374 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 544556010375 HPr interaction site; other site 544556010376 glycerol kinase (GK) interaction site [polypeptide binding]; other site 544556010377 active site 544556010378 phosphorylation site [posttranslational modification] 544556010379 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 544556010380 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 544556010381 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 544556010382 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 544556010383 hexamer interface [polypeptide binding]; other site 544556010384 ligand binding site [chemical binding]; other site 544556010385 putative active site [active] 544556010386 NAD(P) binding site [chemical binding]; other site 544556010387 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 544556010388 putative active site [active] 544556010389 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 544556010390 dimer interface [polypeptide binding]; other site 544556010391 substrate binding site [chemical binding]; other site 544556010392 ATP binding site [chemical binding]; other site 544556010393 Predicted amidohydrolase [General function prediction only]; Region: COG0388 544556010394 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 544556010395 putative active site [active] 544556010396 catalytic triad [active] 544556010397 putative dimer interface [polypeptide binding]; other site 544556010398 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 544556010399 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 544556010400 Na binding site [ion binding]; other site 544556010401 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 544556010402 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 544556010403 substrate binding pocket [chemical binding]; other site 544556010404 membrane-bound complex binding site; other site 544556010405 hinge residues; other site 544556010406 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 544556010407 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 544556010408 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 544556010409 dimer interface [polypeptide binding]; other site 544556010410 conserved gate region; other site 544556010411 putative PBP binding loops; other site 544556010412 ABC-ATPase subunit interface; other site 544556010413 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 544556010414 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 544556010415 Walker A/P-loop; other site 544556010416 ATP binding site [chemical binding]; other site 544556010417 Q-loop/lid; other site 544556010418 ABC transporter signature motif; other site 544556010419 Walker B; other site 544556010420 D-loop; other site 544556010421 H-loop/switch region; other site 544556010422 cytochrome aa3 quinol oxidase, subunit IV; Region: QoxD; TIGR02901 544556010423 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 544556010424 Subunit I/III interface [polypeptide binding]; other site 544556010425 Subunit III/IV interface [polypeptide binding]; other site 544556010426 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 544556010427 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 544556010428 D-pathway; other site 544556010429 Putative ubiquinol binding site [chemical binding]; other site 544556010430 Low-spin heme (heme b) binding site [chemical binding]; other site 544556010431 Putative water exit pathway; other site 544556010432 Binuclear center (heme o3/CuB) [ion binding]; other site 544556010433 K-pathway; other site 544556010434 Putative proton exit pathway; other site 544556010435 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 544556010436 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 544556010437 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 544556010438 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 544556010439 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 544556010440 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 544556010441 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 544556010442 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 544556010443 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 544556010444 [2Fe-2S] cluster binding site [ion binding]; other site 544556010445 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 544556010446 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 544556010447 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 544556010448 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 544556010449 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 544556010450 metal binding site [ion binding]; metal-binding site 544556010451 active site 544556010452 I-site; other site 544556010453 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 544556010454 CxxH/CxxC protein, BA_5709 family; Region: CxxH_BA5709; TIGR04129 544556010455 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 544556010456 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 544556010457 protein binding site [polypeptide binding]; other site 544556010458 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 544556010459 YycH protein; Region: YycI; pfam09648 544556010460 YycH protein; Region: YycH; pfam07435 544556010461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 544556010462 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 544556010463 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 544556010464 dimerization interface [polypeptide binding]; other site 544556010465 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 544556010466 putative active site [active] 544556010467 heme pocket [chemical binding]; other site 544556010468 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 544556010469 dimer interface [polypeptide binding]; other site 544556010470 phosphorylation site [posttranslational modification] 544556010471 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 544556010472 ATP binding site [chemical binding]; other site 544556010473 Mg2+ binding site [ion binding]; other site 544556010474 G-X-G motif; other site 544556010475 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 544556010476 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 544556010477 active site 544556010478 phosphorylation site [posttranslational modification] 544556010479 intermolecular recognition site; other site 544556010480 dimerization interface [polypeptide binding]; other site 544556010481 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 544556010482 DNA binding site [nucleotide binding] 544556010483 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 544556010484 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 544556010485 GDP-binding site [chemical binding]; other site 544556010486 ACT binding site; other site 544556010487 IMP binding site; other site 544556010488 replicative DNA helicase; Provisional; Region: PRK05748 544556010489 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 544556010490 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 544556010491 Walker A motif; other site 544556010492 ATP binding site [chemical binding]; other site 544556010493 Walker B motif; other site 544556010494 DNA binding loops [nucleotide binding] 544556010495 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 544556010496 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 544556010497 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 544556010498 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 544556010499 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 544556010500 DHH family; Region: DHH; pfam01368 544556010501 DHHA1 domain; Region: DHHA1; pfam02272 544556010502 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 544556010503 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 544556010504 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 544556010505 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 544556010506 dimer interface [polypeptide binding]; other site 544556010507 ssDNA binding site [nucleotide binding]; other site 544556010508 tetramer (dimer of dimers) interface [polypeptide binding]; other site 544556010509 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 544556010510 GTP-binding protein YchF; Reviewed; Region: PRK09601 544556010511 YchF GTPase; Region: YchF; cd01900 544556010512 G1 box; other site 544556010513 GTP/Mg2+ binding site [chemical binding]; other site 544556010514 Switch I region; other site 544556010515 G2 box; other site 544556010516 Switch II region; other site 544556010517 G3 box; other site 544556010518 G4 box; other site 544556010519 G5 box; other site 544556010520 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 544556010521 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 544556010522 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 544556010523 putative [4Fe-4S] binding site [ion binding]; other site 544556010524 putative molybdopterin cofactor binding site [chemical binding]; other site 544556010525 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 544556010526 molybdopterin cofactor binding site; other site 544556010527 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 544556010528 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 544556010529 Mechanosensitive ion channel; Region: MS_channel; pfam00924 544556010530 putative sporulation protein YyaC; Region: spore_YyaC; TIGR02841 544556010531 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 544556010532 ParB-like nuclease domain; Region: ParB; smart00470 544556010533 KorB domain; Region: KorB; pfam08535 544556010534 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 544556010535 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 544556010536 P-loop; other site 544556010537 Magnesium ion binding site [ion binding]; other site 544556010538 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 544556010539 Magnesium ion binding site [ion binding]; other site 544556010540 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 544556010541 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 544556010542 ParB-like nuclease domain; Region: ParBc; pfam02195 544556010543 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 544556010544 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 544556010545 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 544556010546 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 544556010547 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 544556010548 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 544556010549 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 544556010550 trmE is a tRNA modification GTPase; Region: trmE; cd04164 544556010551 G1 box; other site 544556010552 GTP/Mg2+ binding site [chemical binding]; other site 544556010553 Switch I region; other site 544556010554 G2 box; other site 544556010555 Switch II region; other site 544556010556 G3 box; other site 544556010557 G4 box; other site 544556010558 G5 box; other site 544556010559 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 544556010560 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 544556010561 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 544556010562 G-X-X-G motif; other site 544556010563 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 544556010564 RxxxH motif; other site 544556010565 OxaA-like protein precursor; Validated; Region: PRK02944 544556010566 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 544556010567 ribonuclease P; Reviewed; Region: rnpA; PRK00499 544556010568 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 544556010569 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 544556010570 CoA-transferase family III; Region: CoA_transf_3; pfam02515 544556010571 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 544556010572 active site 544556010573 catalytic residues [active] 544556010574 metal binding site [ion binding]; metal-binding site 544556010575 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556010576 Transposase IS4; Region: DDE_Tnp_1_7; pfam13843 544556010577 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 544556010578 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 544556010579 substrate binding site [chemical binding]; other site 544556010580 ligand binding site [chemical binding]; other site 544556010581 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 544556010582 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 544556010583 substrate binding site [chemical binding]; other site 544556010584 Transposase [DNA replication, recombination, and repair]; Region: COG5421 544556010585 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 544556010586 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 544556010587 P-loop; other site 544556010588 Magnesium ion binding site [ion binding]; other site 544556010589 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 544556010590 Magnesium ion binding site [ion binding]; other site 544556010591 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 544556010592 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 544556010593 cofactor binding site; other site 544556010594 DNA binding site [nucleotide binding] 544556010595 substrate interaction site [chemical binding]; other site 544556010596 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 544556010597 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 544556010598 additional DNA contacts [nucleotide binding]; other site 544556010599 mismatch recognition site; other site 544556010600 active site 544556010601 zinc binding site [ion binding]; other site 544556010602 DNA intercalation site [nucleotide binding]; other site 544556010603 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 544556010604 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 544556010605 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 544556010606 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 544556010607 PAS domain; Region: PAS_9; pfam13426 544556010608 putative active site [active] 544556010609 heme pocket [chemical binding]; other site 544556010610 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 544556010611 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 544556010612 Walker A motif; other site 544556010613 ATP binding site [chemical binding]; other site 544556010614 Walker B motif; other site 544556010615 arginine finger; other site 544556010616 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 544556010617 Protein of unknown function (DUF917); Region: DUF917; pfam06032 544556010618 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 544556010619 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 544556010620 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 544556010621 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 544556010622 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 544556010623 Na binding site [ion binding]; other site 544556010624 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 544556010625 Uncharacterized conserved protein [Function unknown]; Region: COG3535 544556010626 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 544556010627 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 544556010628 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 544556010629 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 544556010630 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 544556010631 active site 544556010632 DNA binding site [nucleotide binding] 544556010633 Int/Topo IB signature motif; other site 544556010634 Initiator Replication protein; Region: Rep_3; pfam01051 544556010635 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 544556010636 Int/Topo IB signature motif; other site 544556010637 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 544556010638 YvrJ protein family; Region: YvrJ; pfam12841 544556010639 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 544556010640 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 544556010641 DDE superfamily endonuclease; Region: DDE_5; cl17874 544556010642 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556010643 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 544556010644 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 544556010645 Propionate catabolism activator; Region: PrpR_N; pfam06506 544556010646 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 544556010647 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 544556010648 putative active site [active] 544556010649 heme pocket [chemical binding]; other site 544556010650 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 544556010651 Walker A motif; other site 544556010652 ATP binding site [chemical binding]; other site 544556010653 Walker B motif; other site 544556010654 arginine finger; other site 544556010655 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 544556010656 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 544556010657 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 544556010658 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; cl00220 544556010659 Isochorismatase family; Region: Isochorismatase; pfam00857 544556010660 catalytic triad [active] 544556010661 conserved cis-peptide bond; other site 544556010662 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 544556010663 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 544556010664 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 544556010665 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 544556010666 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538