-- dump date 20140619_023105 -- class Genbank::misc_feature -- table misc_feature_note -- id note 477974000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 477974000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 477974000003 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 477974000004 Walker A motif; other site 477974000005 ATP binding site [chemical binding]; other site 477974000006 Walker B motif; other site 477974000007 arginine finger; other site 477974000008 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 477974000009 DnaA box-binding interface [nucleotide binding]; other site 477974000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 477974000011 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 477974000012 putative DNA binding surface [nucleotide binding]; other site 477974000013 dimer interface [polypeptide binding]; other site 477974000014 beta-clamp/clamp loader binding surface; other site 477974000015 beta-clamp/translesion DNA polymerase binding surface; other site 477974000016 recombination protein F; Reviewed; Region: recF; PRK00064 477974000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 477974000018 Walker A/P-loop; other site 477974000019 ATP binding site [chemical binding]; other site 477974000020 Q-loop/lid; other site 477974000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 477974000022 ABC transporter signature motif; other site 477974000023 Walker B; other site 477974000024 D-loop; other site 477974000025 H-loop/switch region; other site 477974000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 477974000027 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 477974000028 Mg2+ binding site [ion binding]; other site 477974000029 G-X-G motif; other site 477974000030 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 477974000031 anchoring element; other site 477974000032 dimer interface [polypeptide binding]; other site 477974000033 ATP binding site [chemical binding]; other site 477974000034 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 477974000035 active site 477974000036 putative metal-binding site [ion binding]; other site 477974000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 477974000038 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 477974000039 active site 477974000040 DNA gyrase subunit A; Validated; Region: PRK05560 477974000041 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 477974000042 CAP-like domain; other site 477974000043 active site 477974000044 primary dimer interface [polypeptide binding]; other site 477974000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 477974000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 477974000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 477974000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 477974000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 477974000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 477974000051 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 477974000052 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 477974000053 active site 477974000054 multimer interface [polypeptide binding]; other site 477974000055 imidazole glycerol phosphate synthase subunit hisH; Provisional; Region: hisH; CHL00188 477974000056 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 477974000057 predicted active site [active] 477974000058 catalytic triad [active] 477974000059 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 477974000060 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 477974000061 catalytic residue [active] 477974000062 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 477974000063 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 477974000064 ligand binding site [chemical binding]; other site 477974000065 NAD binding site [chemical binding]; other site 477974000066 dimerization interface [polypeptide binding]; other site 477974000067 catalytic site [active] 477974000068 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 477974000069 putative L-serine binding site [chemical binding]; other site 477974000070 seryl-tRNA synthetase; Provisional; Region: PRK05431 477974000071 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 477974000072 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 477974000073 dimer interface [polypeptide binding]; other site 477974000074 active site 477974000075 motif 1; other site 477974000076 motif 2; other site 477974000077 motif 3; other site 477974000078 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 477974000079 nucleoside/Zn binding site; other site 477974000080 dimer interface [polypeptide binding]; other site 477974000081 catalytic motif [active] 477974000082 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 477974000083 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 477974000084 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 477974000085 trimer interface [polypeptide binding]; other site 477974000086 active site 477974000087 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 477974000088 catalytic site [active] 477974000089 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 477974000090 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 477974000091 active site 477974000092 homodimer interface [polypeptide binding]; other site 477974000093 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 477974000094 NeuB family; Region: NeuB; pfam03102 477974000095 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 477974000096 NeuB binding interface [polypeptide binding]; other site 477974000097 putative substrate binding site [chemical binding]; other site 477974000098 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 477974000099 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 477974000100 NAD(P) binding site [chemical binding]; other site 477974000101 homodimer interface [polypeptide binding]; other site 477974000102 substrate binding site [chemical binding]; other site 477974000103 active site 477974000104 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 477974000105 ligand binding site; other site 477974000106 tetramer interface; other site 477974000107 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 477974000108 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 477974000109 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 477974000110 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 477974000111 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 477974000112 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 477974000113 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 477974000114 putative trimer interface [polypeptide binding]; other site 477974000115 putative CoA binding site [chemical binding]; other site 477974000116 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 477974000117 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 477974000118 inhibitor-cofactor binding pocket; inhibition site 477974000119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974000120 catalytic residue [active] 477974000121 BNR repeat-like domain; Region: BNR_2; pfam13088 477974000122 BRE1 E3 ubiquitin ligase; Region: BRE1; pfam08647 477974000123 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974000124 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 477974000125 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 477974000126 Walker A motif; other site 477974000127 ATP binding site [chemical binding]; other site 477974000128 Walker B motif; other site 477974000129 arginine finger; other site 477974000130 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 477974000131 hypothetical protein; Validated; Region: PRK00153 477974000132 recombination protein RecR; Reviewed; Region: recR; PRK00076 477974000133 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 477974000134 RecR protein; Region: RecR; pfam02132 477974000135 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 477974000136 putative active site [active] 477974000137 putative metal-binding site [ion binding]; other site 477974000138 tetramer interface [polypeptide binding]; other site 477974000139 SigmaK-factor processing regulatory protein BofA; Region: BofA; pfam07441 477974000140 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 477974000141 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 477974000142 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 477974000143 catalytic residue [active] 477974000144 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 477974000145 thymidylate kinase; Validated; Region: tmk; PRK00698 477974000146 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 477974000147 TMP-binding site; other site 477974000148 ATP-binding site [chemical binding]; other site 477974000149 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 477974000150 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 477974000151 Walker A motif; other site 477974000152 ATP binding site [chemical binding]; other site 477974000153 Walker B motif; other site 477974000154 arginine finger; other site 477974000155 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 477974000156 Predicted methyltransferases [General function prediction only]; Region: COG0313 477974000157 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 477974000158 putative SAM binding site [chemical binding]; other site 477974000159 putative homodimer interface [polypeptide binding]; other site 477974000160 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 477974000161 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 477974000162 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 477974000163 HIGH motif; other site 477974000164 active site 477974000165 KMSKS motif; other site 477974000166 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 477974000167 tRNA binding surface [nucleotide binding]; other site 477974000168 anticodon binding site; other site 477974000169 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 477974000170 active site 477974000171 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 477974000172 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 477974000173 homodimer interface [polypeptide binding]; other site 477974000174 Walker A motif; other site 477974000175 ATP binding site [chemical binding]; other site 477974000176 hydroxycobalamin binding site [chemical binding]; other site 477974000177 Walker B motif; other site 477974000178 Domain of unknown function (DUF348); Region: DUF348; pfam03990 477974000179 Domain of unknown function (DUF348); Region: DUF348; pfam03990 477974000180 G5 domain; Region: G5; pfam07501 477974000181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 477974000182 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 477974000183 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 477974000184 S-adenosylmethionine binding site [chemical binding]; other site 477974000185 Protein of unknown function (DUF458); Region: DUF458; pfam04308 477974000186 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 477974000187 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 477974000188 active site 477974000189 YabG peptidase U57; Region: Peptidase_U57; pfam05582 477974000190 flagellar assembly protein H; Validated; Region: fliH; PRK05687 477974000191 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 477974000192 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 477974000193 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 477974000194 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 477974000195 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 477974000196 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 477974000197 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 477974000198 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 477974000199 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 477974000200 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 477974000201 Protein of unknown function, DUF606; Region: DUF606; pfam04657 477974000202 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 477974000203 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 477974000204 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 477974000205 Transcriptional regulators [Transcription]; Region: GntR; COG1802 477974000206 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 477974000207 DNA-binding site [nucleotide binding]; DNA binding site 477974000208 FCD domain; Region: FCD; pfam07729 477974000209 MobA-like NTP transferase domain; Region: NTP_transf_3; pfam12804 477974000210 active site 477974000211 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 477974000212 putative active site [active] 477974000213 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 477974000214 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 477974000215 CPxP motif; other site 477974000216 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 477974000217 Transcriptional regulator [Transcription]; Region: LysR; COG0583 477974000218 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 477974000219 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 477974000220 putative dimerization interface [polypeptide binding]; other site 477974000221 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 477974000222 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 477974000223 tetramer interface [polypeptide binding]; other site 477974000224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974000225 catalytic residue [active] 477974000226 regulatory protein SpoVG; Reviewed; Region: PRK13259 477974000227 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 477974000228 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 477974000229 Substrate binding site; other site 477974000230 Mg++ binding site; other site 477974000231 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 477974000232 active site 477974000233 substrate binding site [chemical binding]; other site 477974000234 CoA binding site [chemical binding]; other site 477974000235 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 477974000236 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 477974000237 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 477974000238 active site 477974000239 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 477974000240 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 477974000241 5S rRNA interface [nucleotide binding]; other site 477974000242 CTC domain interface [polypeptide binding]; other site 477974000243 L16 interface [polypeptide binding]; other site 477974000244 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 477974000245 putative active site [active] 477974000246 catalytic residue [active] 477974000247 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 477974000248 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 477974000249 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 477974000250 ATP binding site [chemical binding]; other site 477974000251 putative Mg++ binding site [ion binding]; other site 477974000252 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 477974000253 nucleotide binding region [chemical binding]; other site 477974000254 ATP-binding site [chemical binding]; other site 477974000255 TRCF domain; Region: TRCF; pfam03461 477974000256 stage V sporulation protein T; Region: spore_V_T; TIGR02851 477974000257 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 477974000258 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 477974000259 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 477974000260 active site 477974000261 homodimer interface [polypeptide binding]; other site 477974000262 SAM binding site [chemical binding]; other site 477974000263 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 477974000264 homodimer interface [polypeptide binding]; other site 477974000265 metal binding site [ion binding]; metal-binding site 477974000266 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 477974000267 homodimer interface [polypeptide binding]; other site 477974000268 active site 477974000269 putative chemical substrate binding site [chemical binding]; other site 477974000270 metal binding site [ion binding]; metal-binding site 477974000271 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 477974000272 IHF dimer interface [polypeptide binding]; other site 477974000273 IHF - DNA interface [nucleotide binding]; other site 477974000274 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 477974000275 RNA binding surface [nucleotide binding]; other site 477974000276 YabP family; Region: YabP; cl06766 477974000277 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; pfam09578 477974000278 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 477974000279 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 477974000280 DNA binding residues [nucleotide binding] 477974000281 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 477974000282 Septum formation initiator; Region: DivIC; pfam04977 477974000283 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 477974000284 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 477974000285 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 477974000286 exopolyphosphatase; Region: exo_poly_only; TIGR03706 477974000287 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 477974000288 stage II sporulation protein E; Region: spore_II_E; TIGR02865 477974000289 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 477974000290 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 477974000291 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 477974000292 Ligand Binding Site [chemical binding]; other site 477974000293 TilS substrate C-terminal domain; Region: TilS_C; smart00977 477974000294 FtsH Extracellular; Region: FtsH_ext; pfam06480 477974000295 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 477974000296 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 477974000297 Walker A motif; other site 477974000298 ATP binding site [chemical binding]; other site 477974000299 Walker B motif; other site 477974000300 arginine finger; other site 477974000301 Peptidase family M41; Region: Peptidase_M41; pfam01434 477974000302 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 477974000303 active site 477974000304 multimer interface [polypeptide binding]; other site 477974000305 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 477974000306 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 477974000307 Potassium binding sites [ion binding]; other site 477974000308 Cesium cation binding sites [ion binding]; other site 477974000309 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 477974000310 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 477974000311 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 477974000312 Walker A motif; other site 477974000313 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974000314 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974000315 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 477974000316 4Fe-4S binding domain; Region: Fer4_6; pfam12837 477974000317 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 477974000318 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 477974000319 Cysteine-rich domain; Region: CCG; pfam02754 477974000320 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 477974000321 dihydropteroate synthase; Region: DHPS; TIGR01496 477974000322 substrate binding pocket [chemical binding]; other site 477974000323 dimer interface [polypeptide binding]; other site 477974000324 inhibitor binding site; inhibition site 477974000325 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 477974000326 homooctamer interface [polypeptide binding]; other site 477974000327 active site 477974000328 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 477974000329 catalytic center binding site [active] 477974000330 ATP binding site [chemical binding]; other site 477974000331 NAD-dependent deacetylase; Provisional; Region: PRK00481 477974000332 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 477974000333 NAD+ binding site [chemical binding]; other site 477974000334 substrate binding site [chemical binding]; other site 477974000335 Zn binding site [ion binding]; other site 477974000336 Rossmann-like domain; Region: Rossmann-like; pfam10727 477974000337 Uncharacterized conserved protein [Function unknown]; Region: COG5495 477974000338 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 477974000339 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 477974000340 oligomerization interface [polypeptide binding]; other site 477974000341 active site 477974000342 metal binding site [ion binding]; metal-binding site 477974000343 pantoate--beta-alanine ligase; Region: panC; TIGR00018 477974000344 Pantoate-beta-alanine ligase; Region: PanC; cd00560 477974000345 active site 477974000346 ATP-binding site [chemical binding]; other site 477974000347 pantoate-binding site; other site 477974000348 HXXH motif; other site 477974000349 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 477974000350 tetramerization interface [polypeptide binding]; other site 477974000351 active site 477974000352 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 477974000353 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 477974000354 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 477974000355 homodimer interface [polypeptide binding]; other site 477974000356 NADP binding site [chemical binding]; other site 477974000357 substrate binding site [chemical binding]; other site 477974000358 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 477974000359 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 477974000360 [4Fe-4S] binding site [ion binding]; other site 477974000361 molybdopterin cofactor binding site; other site 477974000362 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 477974000363 molybdopterin cofactor binding site; other site 477974000364 acetyl-CoA decarbonylase/synthase complex subunit alpha; Validated; Region: PRK00941 477974000365 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 477974000366 ACS interaction site; other site 477974000367 CODH interaction site; other site 477974000368 metal cluster binding site [ion binding]; other site 477974000369 CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit; Region: CO_dh; cl00815 477974000370 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 477974000371 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 477974000372 P-loop; other site 477974000373 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 477974000374 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1810 477974000375 Thymidylate synthase; Region: dTMP_synthase; pfam02593 477974000376 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 477974000377 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 477974000378 putative dimer interface [polypeptide binding]; other site 477974000379 [2Fe-2S] cluster binding site [ion binding]; other site 477974000380 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 477974000381 dimer interface [polypeptide binding]; other site 477974000382 [2Fe-2S] cluster binding site [ion binding]; other site 477974000383 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 477974000384 SLBB domain; Region: SLBB; pfam10531 477974000385 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 477974000386 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 477974000387 4Fe-4S binding domain; Region: Fer4; pfam00037 477974000388 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 477974000389 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 477974000390 catalytic loop [active] 477974000391 iron binding site [ion binding]; other site 477974000392 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 477974000393 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 477974000394 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 477974000395 catalytic loop [active] 477974000396 iron binding site [ion binding]; other site 477974000397 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 477974000398 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 477974000399 molybdopterin cofactor binding site; other site 477974000400 acetyl-CoA decarbonylase/synthase complex subunit beta; Reviewed; Region: PRK04456 477974000401 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 477974000402 Putative Fe-S cluster; Region: FeS; pfam04060 477974000403 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 477974000404 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 477974000405 substrate binding pocket [chemical binding]; other site 477974000406 dimer interface [polypeptide binding]; other site 477974000407 inhibitor binding site; inhibition site 477974000408 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 477974000409 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 477974000410 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 477974000411 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 477974000412 FAD binding site [chemical binding]; other site 477974000413 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 477974000414 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 477974000415 Potassium binding sites [ion binding]; other site 477974000416 Cesium cation binding sites [ion binding]; other site 477974000417 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 477974000418 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 477974000419 active site 477974000420 phosphorylation site [posttranslational modification] 477974000421 intermolecular recognition site; other site 477974000422 dimerization interface [polypeptide binding]; other site 477974000423 LytTr DNA-binding domain; Region: LytTR; smart00850 477974000424 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cl00540 477974000425 Quinolinate synthetase A protein; Region: NadA; pfam02445 477974000426 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 477974000427 L-aspartate oxidase; Provisional; Region: PRK06175 477974000428 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 477974000429 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 477974000430 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 477974000431 dimerization interface [polypeptide binding]; other site 477974000432 active site 477974000433 Uncharacterized conserved protein, YhbC family [Function unknown]; Region: COG0782 477974000434 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 477974000435 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 477974000436 putative DNA binding site [nucleotide binding]; other site 477974000437 putative Zn2+ binding site [ion binding]; other site 477974000438 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 477974000439 pantothenate kinase; Reviewed; Region: PRK13318 477974000440 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 477974000441 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 477974000442 FMN binding site [chemical binding]; other site 477974000443 active site 477974000444 catalytic residues [active] 477974000445 substrate binding site [chemical binding]; other site 477974000446 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 477974000447 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 477974000448 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 477974000449 Predicted dehydrogenase [General function prediction only]; Region: COG5322 477974000450 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 477974000451 NAD(P) binding pocket [chemical binding]; other site 477974000452 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 477974000453 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 477974000454 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 477974000455 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 477974000456 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 477974000457 dimer interface [polypeptide binding]; other site 477974000458 putative anticodon binding site; other site 477974000459 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 477974000460 motif 1; other site 477974000461 active site 477974000462 motif 2; other site 477974000463 motif 3; other site 477974000464 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 477974000465 active site 477974000466 NTP binding site [chemical binding]; other site 477974000467 metal binding triad [ion binding]; metal-binding site 477974000468 antibiotic binding site [chemical binding]; other site 477974000469 HEPN domain; Region: HEPN; pfam05168 477974000470 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 477974000471 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 477974000472 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 477974000473 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 477974000474 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 477974000475 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 477974000476 Sensory domain found in PocR; Region: PocR; pfam10114 477974000477 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 477974000478 PAS domain; Region: PAS_9; pfam13426 477974000479 putative active site [active] 477974000480 heme pocket [chemical binding]; other site 477974000481 PAS domain S-box; Region: sensory_box; TIGR00229 477974000482 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 477974000483 putative active site [active] 477974000484 heme pocket [chemical binding]; other site 477974000485 PAS domain S-box; Region: sensory_box; TIGR00229 477974000486 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 477974000487 putative active site [active] 477974000488 heme pocket [chemical binding]; other site 477974000489 PAS domain S-box; Region: sensory_box; TIGR00229 477974000490 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 477974000491 putative active site [active] 477974000492 heme pocket [chemical binding]; other site 477974000493 PAS domain S-box; Region: sensory_box; TIGR00229 477974000494 PAS domain; Region: PAS_8; pfam13188 477974000495 PAS domain; Region: PAS; smart00091 477974000496 PAS fold; Region: PAS_4; pfam08448 477974000497 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 477974000498 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974000499 metal binding site [ion binding]; metal-binding site 477974000500 active site 477974000501 I-site; other site 477974000502 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 477974000503 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974000504 Zn2+ binding site [ion binding]; other site 477974000505 Mg2+ binding site [ion binding]; other site 477974000506 hypothetical protein; Provisional; Region: PRK06851 477974000507 hypothetical protein; Provisional; Region: PRK06761 477974000508 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 477974000509 active site 477974000510 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 477974000511 dimer interface [polypeptide binding]; other site 477974000512 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 477974000513 Ligand Binding Site [chemical binding]; other site 477974000514 Molecular Tunnel; other site 477974000515 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 477974000516 Nitrogen regulatory protein P-II; Region: P-II; smart00938 477974000517 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 477974000518 nitrogenase iron protein; Region: nifH; TIGR01287 477974000519 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 477974000520 Nucleotide-binding sites [chemical binding]; other site 477974000521 Switch I region of nucleotide binding site; other site 477974000522 Fe4S4 binding sites [ion binding]; other site 477974000523 Switch II region of nucleotide binding site; other site 477974000524 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 477974000525 Nitrogen regulatory protein P-II; Region: P-II; smart00938 477974000526 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 477974000527 Nitrogen regulatory protein P-II; Region: P-II; smart00938 477974000528 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 477974000529 Nitrogenase_MoFe_alpha_like: Nitrogenase MoFe protein, alpha subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. Three genetically distinct types of nitrogenase systems are known to exist: a...; Region: Nitrogenase_MoFe_alpha_like; cd01967 477974000530 Nitrogenase_MoFe_beta_like: Nitrogenase MoFe protein, beta subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. This group contains the beta subunits of component 1 of the three known genetically...; Region: Nitrogenase_MoFe_beta_like; cd01965 477974000531 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 477974000532 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 477974000533 Nitrogenase_MoFe_alpha_like: Nitrogenase MoFe protein, alpha subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. Three genetically distinct types of nitrogenase systems are known to exist: a...; Region: Nitrogenase_MoFe_alpha_like; cd01967 477974000534 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 477974000535 Radical SAM superfamily; Region: Radical_SAM; pfam04055 477974000536 FeS/SAM binding site; other site 477974000537 NAD synthetase; Provisional; Region: PRK13981 477974000538 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 477974000539 multimer interface [polypeptide binding]; other site 477974000540 active site 477974000541 catalytic triad [active] 477974000542 protein interface 1 [polypeptide binding]; other site 477974000543 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 477974000544 homodimer interface [polypeptide binding]; other site 477974000545 NAD binding pocket [chemical binding]; other site 477974000546 ATP binding pocket [chemical binding]; other site 477974000547 Mg binding site [ion binding]; other site 477974000548 active-site loop [active] 477974000549 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 477974000550 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 477974000551 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 477974000552 catalytic loop [active] 477974000553 iron binding site [ion binding]; other site 477974000554 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 477974000555 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 477974000556 4Fe-4S binding domain; Region: Fer4; pfam00037 477974000557 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 477974000558 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 477974000559 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 477974000560 nickel binding site [ion binding]; other site 477974000561 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 477974000562 4Fe-4S binding domain; Region: Fer4; pfam00037 477974000563 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 477974000564 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 477974000565 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974000566 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974000567 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 477974000568 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 477974000569 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 477974000570 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 477974000571 Aspartase; Region: Aspartase; cd01357 477974000572 active sites [active] 477974000573 tetramer interface [polypeptide binding]; other site 477974000574 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 477974000575 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 477974000576 FeS/SAM binding site; other site 477974000577 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 477974000578 amine oxidase; Region: PLN02976 477974000579 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 477974000580 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 477974000581 G1 box; other site 477974000582 GTP/Mg2+ binding site [chemical binding]; other site 477974000583 Switch I region; other site 477974000584 G2 box; other site 477974000585 Switch II region; other site 477974000586 G3 box; other site 477974000587 G4 box; other site 477974000588 G5 box; other site 477974000589 biotin synthase; Provisional; Region: PRK07094 477974000590 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 477974000591 FeS/SAM binding site; other site 477974000592 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 477974000593 DsrE/DsrF-like family; Region: DrsE; pfam02635 477974000594 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 477974000595 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 477974000596 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 477974000597 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 477974000598 Coenzyme A binding pocket [chemical binding]; other site 477974000599 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 477974000600 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 477974000601 FeS/SAM binding site; other site 477974000602 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 477974000603 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 477974000604 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 477974000605 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974000606 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974000607 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 477974000608 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 477974000609 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 477974000610 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 477974000611 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 477974000612 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 477974000613 motif II; other site 477974000614 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 477974000615 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 477974000616 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 477974000617 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 477974000618 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 477974000619 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 477974000620 ADP binding site [chemical binding]; other site 477974000621 phosphagen binding site; other site 477974000622 substrate specificity loop; other site 477974000623 Clp protease ATP binding subunit; Region: clpC; CHL00095 477974000624 Clp amino terminal domain; Region: Clp_N; pfam02861 477974000625 Clp amino terminal domain; Region: Clp_N; pfam02861 477974000626 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 477974000627 Walker A motif; other site 477974000628 ATP binding site [chemical binding]; other site 477974000629 Walker B motif; other site 477974000630 arginine finger; other site 477974000631 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 477974000632 Walker A motif; other site 477974000633 ATP binding site [chemical binding]; other site 477974000634 Walker B motif; other site 477974000635 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 477974000636 DNA repair protein RadA; Provisional; Region: PRK11823 477974000637 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 477974000638 Walker A motif/ATP binding site; other site 477974000639 ATP binding site [chemical binding]; other site 477974000640 Walker B motif; other site 477974000641 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 477974000642 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 477974000643 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 477974000644 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 477974000645 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 477974000646 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 477974000647 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 477974000648 putative active site [active] 477974000649 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 477974000650 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 477974000651 substrate binding site; other site 477974000652 dimer interface; other site 477974000653 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 477974000654 homotrimer interaction site [polypeptide binding]; other site 477974000655 zinc binding site [ion binding]; other site 477974000656 CDP-binding sites; other site 477974000657 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 477974000658 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 477974000659 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 477974000660 trimer interface [polypeptide binding]; other site 477974000661 active site 477974000662 substrate binding site [chemical binding]; other site 477974000663 CoA binding site [chemical binding]; other site 477974000664 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 477974000665 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 477974000666 active site 477974000667 HIGH motif; other site 477974000668 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 477974000669 KMSKS motif; other site 477974000670 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 477974000671 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 477974000672 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 477974000673 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 477974000674 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 477974000675 YacP-like NYN domain; Region: NYN_YacP; pfam05991 477974000676 RNA polymerase factor sigma-70; Validated; Region: PRK08295 477974000677 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974000678 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 477974000679 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 477974000680 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 477974000681 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 477974000682 CAAX protease self-immunity; Region: Abi; pfam02517 477974000683 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 477974000684 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 477974000685 DNA methylase; Region: N6_N4_Mtase; pfam01555 477974000686 DNA methylase; Region: N6_N4_Mtase; pfam01555 477974000687 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 477974000688 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 477974000689 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 477974000690 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 477974000691 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 477974000692 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 477974000693 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 477974000694 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 477974000695 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 477974000696 putative active site [active] 477974000697 elongation factor Tu; Reviewed; Region: PRK00049 477974000698 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 477974000699 G1 box; other site 477974000700 GEF interaction site [polypeptide binding]; other site 477974000701 GTP/Mg2+ binding site [chemical binding]; other site 477974000702 Switch I region; other site 477974000703 G2 box; other site 477974000704 G3 box; other site 477974000705 Switch II region; other site 477974000706 G4 box; other site 477974000707 G5 box; other site 477974000708 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 477974000709 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 477974000710 Antibiotic Binding Site [chemical binding]; other site 477974000711 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 477974000712 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 477974000713 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 477974000714 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 477974000715 putative homodimer interface [polypeptide binding]; other site 477974000716 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 477974000717 heterodimer interface [polypeptide binding]; other site 477974000718 homodimer interface [polypeptide binding]; other site 477974000719 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 477974000720 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 477974000721 23S rRNA interface [nucleotide binding]; other site 477974000722 L7/L12 interface [polypeptide binding]; other site 477974000723 putative thiostrepton binding site; other site 477974000724 L25 interface [polypeptide binding]; other site 477974000725 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 477974000726 mRNA/rRNA interface [nucleotide binding]; other site 477974000727 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 477974000728 23S rRNA interface [nucleotide binding]; other site 477974000729 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 477974000730 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 477974000731 peripheral dimer interface [polypeptide binding]; other site 477974000732 core dimer interface [polypeptide binding]; other site 477974000733 L10 interface [polypeptide binding]; other site 477974000734 L11 interface [polypeptide binding]; other site 477974000735 putative EF-Tu interaction site [polypeptide binding]; other site 477974000736 putative EF-G interaction site [polypeptide binding]; other site 477974000737 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974000738 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974000739 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 477974000740 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 477974000741 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 477974000742 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 477974000743 RPB1 interaction site [polypeptide binding]; other site 477974000744 RPB10 interaction site [polypeptide binding]; other site 477974000745 RPB11 interaction site [polypeptide binding]; other site 477974000746 RPB3 interaction site [polypeptide binding]; other site 477974000747 RPB12 interaction site [polypeptide binding]; other site 477974000748 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 477974000749 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 477974000750 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 477974000751 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 477974000752 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 477974000753 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 477974000754 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 477974000755 G-loop; other site 477974000756 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 477974000757 DNA binding site [nucleotide binding] 477974000758 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 477974000759 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974000760 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974000761 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 477974000762 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 477974000763 S17 interaction site [polypeptide binding]; other site 477974000764 S8 interaction site; other site 477974000765 16S rRNA interaction site [nucleotide binding]; other site 477974000766 streptomycin interaction site [chemical binding]; other site 477974000767 23S rRNA interaction site [nucleotide binding]; other site 477974000768 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 477974000769 30S ribosomal protein S7; Validated; Region: PRK05302 477974000770 elongation factor G; Reviewed; Region: PRK00007 477974000771 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 477974000772 G1 box; other site 477974000773 putative GEF interaction site [polypeptide binding]; other site 477974000774 GTP/Mg2+ binding site [chemical binding]; other site 477974000775 Switch I region; other site 477974000776 G2 box; other site 477974000777 G3 box; other site 477974000778 Switch II region; other site 477974000779 G4 box; other site 477974000780 G5 box; other site 477974000781 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 477974000782 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 477974000783 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 477974000784 elongation factor Tu; Reviewed; Region: PRK00049 477974000785 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 477974000786 G1 box; other site 477974000787 GEF interaction site [polypeptide binding]; other site 477974000788 GTP/Mg2+ binding site [chemical binding]; other site 477974000789 Switch I region; other site 477974000790 G2 box; other site 477974000791 G3 box; other site 477974000792 Switch II region; other site 477974000793 G4 box; other site 477974000794 G5 box; other site 477974000795 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 477974000796 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 477974000797 Antibiotic Binding Site [chemical binding]; other site 477974000798 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 477974000799 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 477974000800 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 477974000801 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 477974000802 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 477974000803 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 477974000804 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 477974000805 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 477974000806 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 477974000807 putative translocon binding site; other site 477974000808 protein-rRNA interface [nucleotide binding]; other site 477974000809 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 477974000810 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 477974000811 G-X-X-G motif; other site 477974000812 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 477974000813 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 477974000814 23S rRNA interface [nucleotide binding]; other site 477974000815 5S rRNA interface [nucleotide binding]; other site 477974000816 putative antibiotic binding site [chemical binding]; other site 477974000817 L25 interface [polypeptide binding]; other site 477974000818 L27 interface [polypeptide binding]; other site 477974000819 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 477974000820 23S rRNA interface [nucleotide binding]; other site 477974000821 putative translocon interaction site; other site 477974000822 signal recognition particle (SRP54) interaction site; other site 477974000823 L23 interface [polypeptide binding]; other site 477974000824 trigger factor interaction site; other site 477974000825 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 477974000826 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 477974000827 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 477974000828 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 477974000829 RNA binding site [nucleotide binding]; other site 477974000830 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 477974000831 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 477974000832 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 477974000833 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 477974000834 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 477974000835 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 477974000836 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 477974000837 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 477974000838 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 477974000839 5S rRNA interface [nucleotide binding]; other site 477974000840 23S rRNA interface [nucleotide binding]; other site 477974000841 L5 interface [polypeptide binding]; other site 477974000842 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 477974000843 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 477974000844 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 477974000845 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 477974000846 23S rRNA binding site [nucleotide binding]; other site 477974000847 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 477974000848 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 477974000849 SecY translocase; Region: SecY; pfam00344 477974000850 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 477974000851 active site 477974000852 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 477974000853 RNA binding site [nucleotide binding]; other site 477974000854 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 477974000855 rRNA binding site [nucleotide binding]; other site 477974000856 predicted 30S ribosome binding site; other site 477974000857 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 477974000858 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 477974000859 30S ribosomal protein S13; Region: bact_S13; TIGR03631 477974000860 30S ribosomal protein S11; Validated; Region: PRK05309 477974000861 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 477974000862 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 477974000863 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 477974000864 RNA binding surface [nucleotide binding]; other site 477974000865 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 477974000866 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 477974000867 alphaNTD - beta interaction site [polypeptide binding]; other site 477974000868 alphaNTD homodimer interface [polypeptide binding]; other site 477974000869 alphaNTD - beta' interaction site [polypeptide binding]; other site 477974000870 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 477974000871 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 477974000872 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 477974000873 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 477974000874 dimerization interface 3.5A [polypeptide binding]; other site 477974000875 active site 477974000876 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 477974000877 SmpB-tmRNA interface; other site 477974000878 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974000879 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974000880 DEAD-like helicases superfamily; Region: DEXDc; smart00487 477974000881 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 477974000882 ATP binding site [chemical binding]; other site 477974000883 putative Mg++ binding site [ion binding]; other site 477974000884 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 477974000885 nucleotide binding region [chemical binding]; other site 477974000886 ATP-binding site [chemical binding]; other site 477974000887 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 477974000888 hypothetical protein; Provisional; Region: PRK08236 477974000889 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 477974000890 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 477974000891 active site 477974000892 Zn binding site [ion binding]; other site 477974000893 FOG: CBS domain [General function prediction only]; Region: COG0517 477974000894 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 477974000895 Cation transport protein; Region: TrkH; cl17365 477974000896 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 477974000897 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 477974000898 TrkA-N domain; Region: TrkA_N; pfam02254 477974000899 TrkA-C domain; Region: TrkA_C; pfam02080 477974000900 TrkA-N domain; Region: TrkA_N; pfam02254 477974000901 TrkA-C domain; Region: TrkA_C; pfam02080 477974000902 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 477974000903 putative active site pocket [active] 477974000904 dimerization interface [polypeptide binding]; other site 477974000905 putative catalytic residue [active] 477974000906 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 477974000907 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 477974000908 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974000909 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 477974000910 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 477974000911 Ligand Binding Site [chemical binding]; other site 477974000912 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 477974000913 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 477974000914 Na binding site [ion binding]; other site 477974000915 cobalt transport protein CbiM; Validated; Region: PRK06265 477974000916 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 477974000917 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 477974000918 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13647 477974000919 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 477974000920 Walker A/P-loop; other site 477974000921 ATP binding site [chemical binding]; other site 477974000922 Q-loop/lid; other site 477974000923 ABC transporter signature motif; other site 477974000924 Walker B; other site 477974000925 D-loop; other site 477974000926 H-loop/switch region; other site 477974000927 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 477974000928 classical (c) SDRs; Region: SDR_c; cd05233 477974000929 NAD(P) binding site [chemical binding]; other site 477974000930 active site 477974000931 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 477974000932 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 477974000933 ATP binding site [chemical binding]; other site 477974000934 substrate interface [chemical binding]; other site 477974000935 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 477974000936 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 477974000937 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 477974000938 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 477974000939 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 477974000940 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 477974000941 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 477974000942 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 477974000943 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 477974000944 active site residue [active] 477974000945 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 477974000946 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 477974000947 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974000948 catalytic residue [active] 477974000949 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 477974000950 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 477974000951 FMN binding site [chemical binding]; other site 477974000952 substrate binding site [chemical binding]; other site 477974000953 putative catalytic residue [active] 477974000954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 477974000955 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 477974000956 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 477974000957 Walker A/P-loop; other site 477974000958 ATP binding site [chemical binding]; other site 477974000959 Q-loop/lid; other site 477974000960 ABC transporter signature motif; other site 477974000961 Walker B; other site 477974000962 D-loop; other site 477974000963 H-loop/switch region; other site 477974000964 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 477974000965 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 477974000966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 477974000967 Domain of unknown function (DUF947); Region: DUF947; pfam06102 477974000968 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 477974000969 Peptidase family M23; Region: Peptidase_M23; pfam01551 477974000970 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 477974000971 C-terminal peptidase (prc); Region: prc; TIGR00225 477974000972 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 477974000973 protein binding site [polypeptide binding]; other site 477974000974 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 477974000975 Catalytic dyad [active] 477974000976 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 477974000977 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 477974000978 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 477974000979 Fe-S cluster binding site [ion binding]; other site 477974000980 active site 477974000981 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 477974000982 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 477974000983 ligand binding site [chemical binding]; other site 477974000984 excinuclease ABC subunit B; Provisional; Region: PRK05298 477974000985 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 477974000986 ATP binding site [chemical binding]; other site 477974000987 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 477974000988 nucleotide binding region [chemical binding]; other site 477974000989 ATP-binding site [chemical binding]; other site 477974000990 Ultra-violet resistance protein B; Region: UvrB; pfam12344 477974000991 UvrB/uvrC motif; Region: UVR; pfam02151 477974000992 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 477974000993 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 477974000994 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 477974000995 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 477974000996 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 477974000997 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 477974000998 GIY-YIG motif/motif A; other site 477974000999 active site 477974001000 catalytic site [active] 477974001001 putative DNA binding site [nucleotide binding]; other site 477974001002 metal binding site [ion binding]; metal-binding site 477974001003 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 477974001004 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 477974001005 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 477974001006 motif II; other site 477974001007 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 477974001008 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 477974001009 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 477974001010 nucleotide binding site [chemical binding]; other site 477974001011 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 477974001012 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 477974001013 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 477974001014 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 477974001015 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_1; cd05017 477974001016 dimer interface [polypeptide binding]; other site 477974001017 active site 477974001018 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_2; cd05637 477974001019 dimer interface [polypeptide binding]; other site 477974001020 active site 477974001021 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 477974001022 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 477974001023 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 477974001024 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 477974001025 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 477974001026 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 477974001027 Phosphoglycerate kinase; Region: PGK; pfam00162 477974001028 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 477974001029 substrate binding site [chemical binding]; other site 477974001030 hinge regions; other site 477974001031 ADP binding site [chemical binding]; other site 477974001032 catalytic site [active] 477974001033 triosephosphate isomerase; Provisional; Region: PRK14567 477974001034 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 477974001035 substrate binding site [chemical binding]; other site 477974001036 dimer interface [polypeptide binding]; other site 477974001037 catalytic triad [active] 477974001038 phosphoglyceromutase; Provisional; Region: PRK05434 477974001039 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 477974001040 enolase; Provisional; Region: eno; PRK00077 477974001041 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 477974001042 dimer interface [polypeptide binding]; other site 477974001043 metal binding site [ion binding]; metal-binding site 477974001044 substrate binding pocket [chemical binding]; other site 477974001045 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 477974001046 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 477974001047 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 477974001048 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 477974001049 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 477974001050 Transcriptional regulator PadR-like family; Region: PadR; cl17335 477974001051 Predicted transcriptional regulators [Transcription]; Region: COG1695 477974001052 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 477974001053 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 477974001054 P loop; other site 477974001055 Nucleotide binding site [chemical binding]; other site 477974001056 DTAP/Switch II; other site 477974001057 Switch I; other site 477974001058 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 477974001059 putative dimer interface [polypeptide binding]; other site 477974001060 Macro domain, Appr-1"-pase_like family. 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...; Region: Macro_Appr_pase_like; cd02908 477974001061 putative ADP-ribose binding site [chemical binding]; other site 477974001062 putative active site [active] 477974001063 Winged helix-turn helix; Region: HTH_29; pfam13551 477974001064 HTH-like domain; Region: HTH_21; pfam13276 477974001065 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 477974001066 NADPH bind site [chemical binding]; other site 477974001067 putative FMN binding site [chemical binding]; other site 477974001068 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 477974001069 putative active site [active] 477974001070 Helix-turn-helix domain; Region: HTH_28; pfam13518 477974001071 Winged helix-turn helix; Region: HTH_29; pfam13551 477974001072 Integrase core domain; Region: rve; pfam00665 477974001073 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 477974001074 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 477974001075 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 477974001076 CoenzymeA binding site [chemical binding]; other site 477974001077 subunit interaction site [polypeptide binding]; other site 477974001078 PHB binding site; other site 477974001079 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 477974001080 ribonuclease R; Region: RNase_R; TIGR02063 477974001081 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 477974001082 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 477974001083 RNB domain; Region: RNB; pfam00773 477974001084 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 477974001085 RNA binding site [nucleotide binding]; other site 477974001086 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 477974001087 23S rRNA interface [nucleotide binding]; other site 477974001088 L3 interface [polypeptide binding]; other site 477974001089 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 477974001090 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 477974001091 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 477974001092 active site 477974001093 metal binding site [ion binding]; metal-binding site 477974001094 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 477974001095 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 477974001096 active site 477974001097 LysE type translocator; Region: LysE; pfam01810 477974001098 hypothetical protein; Provisional; Region: PRK03881 477974001099 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 477974001100 AMMECR1; Region: AMMECR1; pfam01871 477974001101 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 477974001102 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 477974001103 FeS/SAM binding site; other site 477974001104 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 477974001105 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 477974001106 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 477974001107 heterotetramer interface [polypeptide binding]; other site 477974001108 active site pocket [active] 477974001109 cleavage site 477974001110 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 477974001111 feedback inhibition sensing region; other site 477974001112 homohexameric interface [polypeptide binding]; other site 477974001113 nucleotide binding site [chemical binding]; other site 477974001114 N-acetyl-L-glutamate binding site [chemical binding]; other site 477974001115 acetylornithine aminotransferase; Provisional; Region: PRK02627 477974001116 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 477974001117 inhibitor-cofactor binding pocket; inhibition site 477974001118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974001119 catalytic residue [active] 477974001120 ornithine carbamoyltransferase; Provisional; Region: PRK00779 477974001121 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 477974001122 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 477974001123 argininosuccinate synthase; Provisional; Region: PRK13820 477974001124 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 477974001125 ANP binding site [chemical binding]; other site 477974001126 Substrate Binding Site II [chemical binding]; other site 477974001127 Substrate Binding Site I [chemical binding]; other site 477974001128 argininosuccinate lyase; Provisional; Region: PRK00855 477974001129 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 477974001130 active sites [active] 477974001131 tetramer interface [polypeptide binding]; other site 477974001132 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 477974001133 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974001134 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 477974001135 DNA binding residues [nucleotide binding] 477974001136 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 477974001137 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 477974001138 DRTGG domain; Region: DRTGG; pfam07085 477974001139 CBS domain; Region: CBS; pfam00571 477974001140 DHH family; Region: DHH; pfam01368 477974001141 DHHA2 domain; Region: DHHA2; pfam02833 477974001142 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 477974001143 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 477974001144 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 477974001145 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 477974001146 homodimer interface [polypeptide binding]; other site 477974001147 substrate-cofactor binding pocket; other site 477974001148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974001149 catalytic residue [active] 477974001150 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 477974001151 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 477974001152 PYR/PP interface [polypeptide binding]; other site 477974001153 dimer interface [polypeptide binding]; other site 477974001154 TPP binding site [chemical binding]; other site 477974001155 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 477974001156 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 477974001157 TPP-binding site [chemical binding]; other site 477974001158 dimer interface [polypeptide binding]; other site 477974001159 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 477974001160 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 477974001161 putative valine binding site [chemical binding]; other site 477974001162 dimer interface [polypeptide binding]; other site 477974001163 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 477974001164 ketol-acid reductoisomerase; Provisional; Region: PRK05479 477974001165 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 477974001166 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 477974001167 2-isopropylmalate synthase; Validated; Region: PRK00915 477974001168 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 477974001169 active site 477974001170 catalytic residues [active] 477974001171 metal binding site [ion binding]; metal-binding site 477974001172 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 477974001173 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 477974001174 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 477974001175 substrate binding site [chemical binding]; other site 477974001176 ligand binding site [chemical binding]; other site 477974001177 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 477974001178 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 477974001179 substrate binding site [chemical binding]; other site 477974001180 Dehydratase family; Region: ILVD_EDD; cl00340 477974001181 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 477974001182 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 477974001183 active site 477974001184 catalytic residues [active] 477974001185 metal binding site [ion binding]; metal-binding site 477974001186 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 477974001187 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 477974001188 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 477974001189 active site 477974001190 substrate binding site [chemical binding]; other site 477974001191 metal binding site [ion binding]; metal-binding site 477974001192 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 477974001193 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 477974001194 glutaminase active site [active] 477974001195 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 477974001196 dimer interface [polypeptide binding]; other site 477974001197 active site 477974001198 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 477974001199 dimer interface [polypeptide binding]; other site 477974001200 active site 477974001201 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 477974001202 Protein of unknown function (DUF499); Region: DUF499; pfam04465 477974001203 ParB-like nuclease domain; Region: ParBc; cl02129 477974001204 Protein of unknown function DUF86; Region: DUF86; pfam01934 477974001205 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 477974001206 active site 477974001207 NTP binding site [chemical binding]; other site 477974001208 metal binding triad [ion binding]; metal-binding site 477974001209 antibiotic binding site [chemical binding]; other site 477974001210 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 477974001211 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 477974001212 L-lactate permease; Region: Lactate_perm; cl00701 477974001213 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 477974001214 putative active site [active] 477974001215 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 477974001216 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 477974001217 Response regulator receiver domain; Region: Response_reg; pfam00072 477974001218 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 477974001219 active site 477974001220 phosphorylation site [posttranslational modification] 477974001221 intermolecular recognition site; other site 477974001222 dimerization interface [polypeptide binding]; other site 477974001223 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 477974001224 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974001225 metal binding site [ion binding]; metal-binding site 477974001226 active site 477974001227 I-site; other site 477974001228 ThiS family; Region: ThiS; pfam02597 477974001229 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 477974001230 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 477974001231 GatB domain; Region: GatB_Yqey; smart00845 477974001232 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 477974001233 TIGR02677 family protein; Region: TIGR02677 477974001234 Protein of unknown function (DUF2398); Region: DUF2398; pfam09661 477974001235 TIGR02680 family protein; Region: TIGR02680 477974001236 P-loop containing region of AAA domain; Region: AAA_29; cl17516 477974001237 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 477974001238 TIGR02679 family protein; Region: TIGR02679 477974001239 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 477974001240 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974001241 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 477974001242 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 477974001243 dimer interface [polypeptide binding]; other site 477974001244 conserved gate region; other site 477974001245 putative PBP binding loops; other site 477974001246 ABC-ATPase subunit interface; other site 477974001247 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 477974001248 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 477974001249 dimer interface [polypeptide binding]; other site 477974001250 conserved gate region; other site 477974001251 putative PBP binding loops; other site 477974001252 ABC-ATPase subunit interface; other site 477974001253 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 477974001254 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 477974001255 Walker A/P-loop; other site 477974001256 ATP binding site [chemical binding]; other site 477974001257 Q-loop/lid; other site 477974001258 ABC transporter signature motif; other site 477974001259 Walker B; other site 477974001260 D-loop; other site 477974001261 H-loop/switch region; other site 477974001262 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 477974001263 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 477974001264 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 477974001265 Walker A/P-loop; other site 477974001266 ATP binding site [chemical binding]; other site 477974001267 Q-loop/lid; other site 477974001268 ABC transporter signature motif; other site 477974001269 Walker B; other site 477974001270 D-loop; other site 477974001271 H-loop/switch region; other site 477974001272 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 477974001273 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 477974001274 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 477974001275 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 477974001276 ATP-dependent helicase HepA; Validated; Region: PRK04914 477974001277 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 477974001278 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 477974001279 active site 477974001280 NTP binding site [chemical binding]; other site 477974001281 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 477974001282 nucleic acid binding site [nucleotide binding]; other site 477974001283 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974001284 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974001285 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 477974001286 PemK-like protein; Region: PemK; pfam02452 477974001287 Helix-turn-helix domain; Region: HTH_17; pfam12728 477974001288 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 477974001289 putative active site [active] 477974001290 homotetrameric interface [polypeptide binding]; other site 477974001291 metal binding site [ion binding]; metal-binding site 477974001292 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 477974001293 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 477974001294 putative active site [active] 477974001295 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 477974001296 active site 477974001297 catalytic residues [active] 477974001298 metal binding site [ion binding]; metal-binding site 477974001299 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 477974001300 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 477974001301 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 477974001302 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 477974001303 dimer interface [polypeptide binding]; other site 477974001304 conserved gate region; other site 477974001305 putative PBP binding loops; other site 477974001306 ABC-ATPase subunit interface; other site 477974001307 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 477974001308 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 477974001309 Walker A/P-loop; other site 477974001310 ATP binding site [chemical binding]; other site 477974001311 Q-loop/lid; other site 477974001312 ABC transporter signature motif; other site 477974001313 Walker B; other site 477974001314 D-loop; other site 477974001315 H-loop/switch region; other site 477974001316 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 477974001317 4Fe-4S binding domain; Region: Fer4; pfam00037 477974001318 4Fe-4S binding domain; Region: Fer4; pfam00037 477974001319 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 477974001320 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 477974001321 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 477974001322 putative active site [active] 477974001323 Isochorismatase family; Region: Isochorismatase; pfam00857 477974001324 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 477974001325 catalytic triad [active] 477974001326 dimer interface [polypeptide binding]; other site 477974001327 conserved cis-peptide bond; other site 477974001328 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 477974001329 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 477974001330 dimerization interface [polypeptide binding]; other site 477974001331 PAS domain S-box; Region: sensory_box; TIGR00229 477974001332 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 477974001333 putative active site [active] 477974001334 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 477974001335 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974001336 metal binding site [ion binding]; metal-binding site 477974001337 active site 477974001338 I-site; other site 477974001339 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 477974001340 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974001341 Zn2+ binding site [ion binding]; other site 477974001342 Mg2+ binding site [ion binding]; other site 477974001343 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 477974001344 Uncharacterized conserved protein [Function unknown]; Region: COG1656 477974001345 Protein of unknown function DUF82; Region: DUF82; pfam01927 477974001346 Transposase domain (DUF772); Region: DUF772; pfam05598 477974001347 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 477974001348 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974001349 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974001350 Protein of unknown function (DUF342); Region: DUF342; pfam03961 477974001351 RDD family; Region: RDD; pfam06271 477974001352 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974001353 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974001354 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 477974001355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 477974001356 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 477974001357 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 477974001358 Mechanosensitive ion channel; Region: MS_channel; pfam00924 477974001359 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974001360 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 477974001361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 477974001362 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 477974001363 EamA-like transporter family; Region: EamA; pfam00892 477974001364 EamA-like transporter family; Region: EamA; pfam00892 477974001365 hypothetical protein; Provisional; Region: PRK10621 477974001366 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 477974001367 Transcriptional regulators [Transcription]; Region: GntR; COG1802 477974001368 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 477974001369 DNA-binding site [nucleotide binding]; DNA binding site 477974001370 FCD domain; Region: FCD; pfam07729 477974001371 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 477974001372 DNA methylase; Region: N6_N4_Mtase; cl17433 477974001373 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 477974001374 DNA methylase; Region: N6_N4_Mtase; cl17433 477974001375 Methyltransferase domain; Region: Methyltransf_23; pfam13489 477974001376 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 477974001377 S-adenosylmethionine binding site [chemical binding]; other site 477974001378 hypothetical protein; Validated; Region: PRK09039 477974001379 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 477974001380 Accessory gene regulator B; Region: AgrB; pfam04647 477974001381 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 477974001382 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 477974001383 dimer interface [polypeptide binding]; other site 477974001384 phosphorylation site [posttranslational modification] 477974001385 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 477974001386 ATP binding site [chemical binding]; other site 477974001387 Mg2+ binding site [ion binding]; other site 477974001388 G-X-G motif; other site 477974001389 Sporulation and spore germination; Region: Germane; pfam10646 477974001390 PrcB C-terminal; Region: PrcB_C; pfam14343 477974001391 Immunoglobulin-like domain of bacterial spore germination; Region: Gmad2; pfam10648 477974001392 Uncharacterized conserved protein [Function unknown]; Region: COG2006 477974001393 Domain of unknown function (DUF362); Region: DUF362; pfam04015 477974001394 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 477974001395 Clp amino terminal domain; Region: Clp_N; pfam02861 477974001396 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 477974001397 Walker A motif; other site 477974001398 ATP binding site [chemical binding]; other site 477974001399 Walker B motif; other site 477974001400 arginine finger; other site 477974001401 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 477974001402 Walker A motif; other site 477974001403 ATP binding site [chemical binding]; other site 477974001404 Walker B motif; other site 477974001405 arginine finger; other site 477974001406 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 477974001407 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 477974001408 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 477974001409 HSP70 interaction site [polypeptide binding]; other site 477974001410 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 477974001411 substrate binding site [polypeptide binding]; other site 477974001412 dimer interface [polypeptide binding]; other site 477974001413 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 477974001414 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 477974001415 putative dimer interface [polypeptide binding]; other site 477974001416 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 477974001417 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 477974001418 DNA binding residues [nucleotide binding] 477974001419 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 477974001420 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 477974001421 active site 477974001422 metal binding site [ion binding]; metal-binding site 477974001423 homotetramer interface [polypeptide binding]; other site 477974001424 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 477974001425 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 477974001426 TIGR01777 family protein; Region: yfcH 477974001427 putative NAD(P) binding site [chemical binding]; other site 477974001428 putative active site [active] 477974001429 Flagellin N-methylase; Region: FliB; pfam03692 477974001430 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 477974001431 4Fe-4S binding domain; Region: Fer4_5; pfam12801 477974001432 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 477974001433 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 477974001434 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 477974001435 S-adenosylmethionine binding site [chemical binding]; other site 477974001436 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 477974001437 Uncharacterized conserved protein [Function unknown]; Region: COG1434 477974001438 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 477974001439 putative active site [active] 477974001440 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 477974001441 Histidine kinase; Region: His_kinase; pfam06580 477974001442 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 477974001443 ATP binding site [chemical binding]; other site 477974001444 Mg2+ binding site [ion binding]; other site 477974001445 G-X-G motif; other site 477974001446 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 477974001447 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 477974001448 active site 477974001449 phosphorylation site [posttranslational modification] 477974001450 intermolecular recognition site; other site 477974001451 dimerization interface [polypeptide binding]; other site 477974001452 LytTr DNA-binding domain; Region: LytTR; smart00850 477974001453 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 477974001454 Uncharacterized conserved protein [Function unknown]; Region: COG0062 477974001455 putative carbohydrate kinase; Provisional; Region: PRK10565 477974001456 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 477974001457 putative substrate binding site [chemical binding]; other site 477974001458 putative ATP binding site [chemical binding]; other site 477974001459 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 477974001460 alanine racemase; Reviewed; Region: alr; PRK00053 477974001461 active site 477974001462 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 477974001463 dimer interface [polypeptide binding]; other site 477974001464 substrate binding site [chemical binding]; other site 477974001465 catalytic residues [active] 477974001466 Nitrogen regulatory protein P-II; Region: P-II; smart00938 477974001467 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 477974001468 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 477974001469 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 477974001470 H+ Antiporter protein; Region: 2A0121; TIGR00900 477974001471 putative substrate translocation pore; other site 477974001472 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 477974001473 hypothetical protein; Reviewed; Region: PRK09588 477974001474 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 477974001475 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 477974001476 active site 477974001477 NTP binding site [chemical binding]; other site 477974001478 metal binding triad [ion binding]; metal-binding site 477974001479 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 477974001480 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974001481 Zn2+ binding site [ion binding]; other site 477974001482 Mg2+ binding site [ion binding]; other site 477974001483 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 477974001484 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 477974001485 substrate binding site [chemical binding]; other site 477974001486 multimerization interface [polypeptide binding]; other site 477974001487 ATP binding site [chemical binding]; other site 477974001488 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 477974001489 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 477974001490 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 477974001491 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 477974001492 NlpC/P60 family; Region: NLPC_P60; pfam00877 477974001493 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 477974001494 MgtE intracellular N domain; Region: MgtE_N; pfam03448 477974001495 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 477974001496 Divalent cation transporter; Region: MgtE; pfam01769 477974001497 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 477974001498 Flavoprotein; Region: Flavoprotein; pfam02441 477974001499 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 477974001500 Recombination protein O N terminal; Region: RecO_N; pfam11967 477974001501 Recombination protein O C terminal; Region: RecO_C; pfam02565 477974001502 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 477974001503 dimer interface [polypeptide binding]; other site 477974001504 motif 1; other site 477974001505 active site 477974001506 motif 2; other site 477974001507 motif 3; other site 477974001508 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 477974001509 HTH domain; Region: HTH_11; pfam08279 477974001510 FOG: CBS domain [General function prediction only]; Region: COG0517 477974001511 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 477974001512 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 477974001513 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 477974001514 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 477974001515 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 477974001516 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 477974001517 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 477974001518 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 477974001519 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974001520 Zn2+ binding site [ion binding]; other site 477974001521 Mg2+ binding site [ion binding]; other site 477974001522 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 477974001523 DNA primase; Validated; Region: dnaG; PRK05667 477974001524 CHC2 zinc finger; Region: zf-CHC2; pfam01807 477974001525 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 477974001526 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 477974001527 active site 477974001528 metal binding site [ion binding]; metal-binding site 477974001529 interdomain interaction site; other site 477974001530 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 477974001531 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 477974001532 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 477974001533 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 477974001534 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974001535 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 477974001536 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 477974001537 DNA binding residues [nucleotide binding] 477974001538 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 477974001539 trimer interface [polypeptide binding]; other site 477974001540 putative Zn binding site [ion binding]; other site 477974001541 Family of unknown function (DUF633); Region: DUF633; pfam04816 477974001542 Uncharacterized conserved protein [Function unknown]; Region: COG0327 477974001543 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 477974001544 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 477974001545 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 477974001546 active site 477974001547 DNA binding site [nucleotide binding] 477974001548 Int/Topo IB signature motif; other site 477974001549 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 477974001550 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 477974001551 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 477974001552 ATP binding site [chemical binding]; other site 477974001553 putative Mg++ binding site [ion binding]; other site 477974001554 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 477974001555 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 477974001556 nucleotide binding region [chemical binding]; other site 477974001557 ATP-binding site [chemical binding]; other site 477974001558 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 477974001559 KTSC domain; Region: KTSC; pfam13619 477974001560 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 477974001561 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 477974001562 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 477974001563 putative active site [active] 477974001564 putative metal-binding site [ion binding]; other site 477974001565 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 477974001566 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 477974001567 Methyltransferase domain; Region: Methyltransf_26; pfam13659 477974001568 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 477974001569 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 477974001570 Protein of unknown function (DUF499); Region: DUF499; pfam04465 477974001571 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 477974001572 active site 477974001573 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 477974001574 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 477974001575 toxin interface [polypeptide binding]; other site 477974001576 Zn binding site [ion binding]; other site 477974001577 snRNA-activating protein of 50kDa MW C terminal; Region: zf-SNAP50_C; pfam12251 477974001578 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 477974001579 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 477974001580 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 477974001581 active site 477974001582 DNA binding site [nucleotide binding] 477974001583 Int/Topo IB signature motif; other site 477974001584 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 477974001585 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 477974001586 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 477974001587 active site 477974001588 catalytic tetrad [active] 477974001589 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 477974001590 active site 477974001591 metal binding site [ion binding]; metal-binding site 477974001592 homotetramer interface [polypeptide binding]; other site 477974001593 pyrophosphatase PpaX; Provisional; Region: PRK13288 477974001594 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 477974001595 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 477974001596 motif II; other site 477974001597 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974001598 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 477974001599 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 477974001600 Flagellin N-methylase; Region: FliB; pfam03692 477974001601 heat shock protein HtpX; Provisional; Region: PRK05457 477974001602 PAS fold; Region: PAS_4; pfam08448 477974001603 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 477974001604 putative active site [active] 477974001605 heme pocket [chemical binding]; other site 477974001606 PAS domain S-box; Region: sensory_box; TIGR00229 477974001607 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 477974001608 putative active site [active] 477974001609 heme pocket [chemical binding]; other site 477974001610 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 477974001611 dimer interface [polypeptide binding]; other site 477974001612 phosphorylation site [posttranslational modification] 477974001613 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 477974001614 ATP binding site [chemical binding]; other site 477974001615 Mg2+ binding site [ion binding]; other site 477974001616 G-X-G motif; other site 477974001617 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 477974001618 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14250 477974001619 Walker A/P-loop; other site 477974001620 ATP binding site [chemical binding]; other site 477974001621 Q-loop/lid; other site 477974001622 ABC transporter signature motif; other site 477974001623 Walker B; other site 477974001624 D-loop; other site 477974001625 H-loop/switch region; other site 477974001626 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 477974001627 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 477974001628 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 477974001629 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 477974001630 S-adenosylmethionine binding site [chemical binding]; other site 477974001631 Uncharacterized conserved protein [Function unknown]; Region: COG1416 477974001632 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 477974001633 TatD related DNase; Region: TatD_DNase; pfam01026 477974001634 active site 477974001635 PAS domain S-box; Region: sensory_box; TIGR00229 477974001636 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 477974001637 putative active site [active] 477974001638 heme pocket [chemical binding]; other site 477974001639 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 477974001640 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974001641 metal binding site [ion binding]; metal-binding site 477974001642 active site 477974001643 I-site; other site 477974001644 GAF domain; Region: GAF_2; pfam13185 477974001645 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 477974001646 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 477974001647 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 477974001648 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974001649 Zn2+ binding site [ion binding]; other site 477974001650 Mg2+ binding site [ion binding]; other site 477974001651 HsdM N-terminal domain; Region: HsdM_N; pfam12161 477974001652 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 477974001653 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 477974001654 AIR carboxylase; Region: AIRC; smart01001 477974001655 Glutaredoxin; Region: Glutaredoxin; pfam00462 477974001656 Rubrerythrin [Energy production and conversion]; Region: COG1592 477974001657 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 477974001658 binuclear metal center [ion binding]; other site 477974001659 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 477974001660 iron binding site [ion binding]; other site 477974001661 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 477974001662 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 477974001663 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 477974001664 Coat F domain; Region: Coat_F; pfam07875 477974001665 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 477974001666 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 477974001667 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 477974001668 FeS/SAM binding site; other site 477974001669 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 477974001670 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 477974001671 FAD binding pocket [chemical binding]; other site 477974001672 FAD binding motif [chemical binding]; other site 477974001673 phosphate binding motif [ion binding]; other site 477974001674 beta-alpha-beta structure motif; other site 477974001675 NAD binding pocket [chemical binding]; other site 477974001676 Iron coordination center [ion binding]; other site 477974001677 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 477974001678 putative oxidoreductase; Provisional; Region: PRK12831 477974001679 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 477974001680 Protein of unknown function (DUF964); Region: DUF964; pfam06133 477974001681 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 477974001682 MutS domain I; Region: MutS_I; pfam01624 477974001683 MutS domain II; Region: MutS_II; pfam05188 477974001684 MutS domain III; Region: MutS_III; pfam05192 477974001685 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 477974001686 Walker A/P-loop; other site 477974001687 ATP binding site [chemical binding]; other site 477974001688 Q-loop/lid; other site 477974001689 ABC transporter signature motif; other site 477974001690 Walker B; other site 477974001691 D-loop; other site 477974001692 H-loop/switch region; other site 477974001693 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 477974001694 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 477974001695 ATP binding site [chemical binding]; other site 477974001696 Mg2+ binding site [ion binding]; other site 477974001697 G-X-G motif; other site 477974001698 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 477974001699 ATP binding site [chemical binding]; other site 477974001700 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 477974001701 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 477974001702 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 477974001703 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 477974001704 bacterial Hfq-like; Region: Hfq; cd01716 477974001705 hexamer interface [polypeptide binding]; other site 477974001706 Sm1 motif; other site 477974001707 RNA binding site [nucleotide binding]; other site 477974001708 Sm2 motif; other site 477974001709 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 477974001710 Aluminium resistance protein; Region: Alum_res; pfam06838 477974001711 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 477974001712 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 477974001713 Predicted amidohydrolase [General function prediction only]; Region: COG0388 477974001714 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 477974001715 putative active site [active] 477974001716 catalytic triad [active] 477974001717 dimer interface [polypeptide binding]; other site 477974001718 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 477974001719 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 477974001720 active site 477974001721 catalytic site [active] 477974001722 substrate binding site [chemical binding]; other site 477974001723 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 477974001724 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 477974001725 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 477974001726 putative Mg++ binding site [ion binding]; other site 477974001727 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 477974001728 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 477974001729 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 477974001730 Cysteine-rich domain; Region: CCG; pfam02754 477974001731 Cysteine-rich domain; Region: CCG; pfam02754 477974001732 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974001733 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 477974001734 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 477974001735 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 477974001736 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 477974001737 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 477974001738 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 477974001739 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 477974001740 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 477974001741 FAD binding pocket [chemical binding]; other site 477974001742 FAD binding motif [chemical binding]; other site 477974001743 phosphate binding motif [ion binding]; other site 477974001744 beta-alpha-beta structure motif; other site 477974001745 NAD binding pocket [chemical binding]; other site 477974001746 Iron coordination center [ion binding]; other site 477974001747 Protein of unknown function (DUF342); Region: DUF342; pfam03961 477974001748 Protein of unknown function (DUF342); Region: DUF342; pfam03961 477974001749 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 477974001750 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974001751 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 477974001752 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 477974001753 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974001754 Zn2+ binding site [ion binding]; other site 477974001755 Mg2+ binding site [ion binding]; other site 477974001756 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 477974001757 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974001758 Zn2+ binding site [ion binding]; other site 477974001759 Mg2+ binding site [ion binding]; other site 477974001760 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974001761 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974001762 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 477974001763 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 477974001764 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 477974001765 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 477974001766 catalytic triad [active] 477974001767 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 477974001768 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 477974001769 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 477974001770 SpoVR like protein; Region: SpoVR; pfam04293 477974001771 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 477974001772 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 477974001773 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 477974001774 putative DNA binding site [nucleotide binding]; other site 477974001775 putative homodimer interface [polypeptide binding]; other site 477974001776 SurA N-terminal domain; Region: SurA_N_3; cl07813 477974001777 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 477974001778 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 477974001779 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 477974001780 active site 477974001781 DNA binding site [nucleotide binding] 477974001782 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 477974001783 DNA binding site [nucleotide binding] 477974001784 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 477974001785 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_2; cd04865 477974001786 nucleotide binding site [chemical binding]; other site 477974001787 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 477974001788 DNA protecting protein DprA; Region: dprA; TIGR00732 477974001789 DNA topoisomerase I; Validated; Region: PRK05582 477974001790 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 477974001791 active site 477974001792 interdomain interaction site; other site 477974001793 putative metal-binding site [ion binding]; other site 477974001794 nucleotide binding site [chemical binding]; other site 477974001795 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 477974001796 domain I; other site 477974001797 DNA binding groove [nucleotide binding] 477974001798 phosphate binding site [ion binding]; other site 477974001799 domain II; other site 477974001800 domain III; other site 477974001801 nucleotide binding site [chemical binding]; other site 477974001802 catalytic site [active] 477974001803 domain IV; other site 477974001804 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 477974001805 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 477974001806 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 477974001807 Glucose inhibited division protein A; Region: GIDA; pfam01134 477974001808 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 477974001809 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 477974001810 active site 477974001811 Int/Topo IB signature motif; other site 477974001812 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 477974001813 active site 477974001814 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 477974001815 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 477974001816 Walker A motif; other site 477974001817 ATP binding site [chemical binding]; other site 477974001818 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 477974001819 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 477974001820 transcriptional repressor CodY; Validated; Region: PRK04158 477974001821 CodY GAF-like domain; Region: CodY; pfam06018 477974001822 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 477974001823 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 477974001824 rRNA interaction site [nucleotide binding]; other site 477974001825 S8 interaction site; other site 477974001826 putative laminin-1 binding site; other site 477974001827 elongation factor Ts; Reviewed; Region: tsf; PRK12332 477974001828 UBA/TS-N domain; Region: UBA; pfam00627 477974001829 Elongation factor TS; Region: EF_TS; pfam00889 477974001830 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 477974001831 putative nucleotide binding site [chemical binding]; other site 477974001832 uridine monophosphate binding site [chemical binding]; other site 477974001833 homohexameric interface [polypeptide binding]; other site 477974001834 ribosome recycling factor; Reviewed; Region: frr; PRK00083 477974001835 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 477974001836 hinge region; other site 477974001837 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; cl00230 477974001838 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 477974001839 catalytic residue [active] 477974001840 putative FPP diphosphate binding site; other site 477974001841 putative FPP binding hydrophobic cleft; other site 477974001842 dimer interface [polypeptide binding]; other site 477974001843 putative IPP diphosphate binding site; other site 477974001844 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 477974001845 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 477974001846 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 477974001847 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 477974001848 Chromate transporter; Region: Chromate_transp; pfam02417 477974001849 Predicted transcriptional regulators [Transcription]; Region: COG1695 477974001850 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 477974001851 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 477974001852 Domain of unknown function DUF20; Region: UPF0118; pfam01594 477974001853 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 477974001854 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 477974001855 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 477974001856 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 477974001857 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 477974001858 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 477974001859 active site 477974001860 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 477974001861 protein binding site [polypeptide binding]; other site 477974001862 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 477974001863 putative substrate binding region [chemical binding]; other site 477974001864 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 477974001865 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 477974001866 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 477974001867 prolyl-tRNA synthetase; Provisional; Region: PRK09194 477974001868 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 477974001869 dimer interface [polypeptide binding]; other site 477974001870 motif 1; other site 477974001871 active site 477974001872 motif 2; other site 477974001873 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 477974001874 putative deacylase active site [active] 477974001875 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 477974001876 active site 477974001877 motif 3; other site 477974001878 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 477974001879 anticodon binding site; other site 477974001880 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 477974001881 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 477974001882 dimer interface [polypeptide binding]; other site 477974001883 active site residues [active] 477974001884 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 477974001885 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 477974001886 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 477974001887 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 477974001888 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 477974001889 FeS/SAM binding site; other site 477974001890 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 477974001891 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974001892 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 477974001893 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 477974001894 catalytic motif [active] 477974001895 Zn binding site [ion binding]; other site 477974001896 RibD C-terminal domain; Region: RibD_C; cl17279 477974001897 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 477974001898 Lumazine binding domain; Region: Lum_binding; pfam00677 477974001899 Lumazine binding domain; Region: Lum_binding; pfam00677 477974001900 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 477974001901 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 477974001902 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 477974001903 dimerization interface [polypeptide binding]; other site 477974001904 active site 477974001905 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 477974001906 homopentamer interface [polypeptide binding]; other site 477974001907 active site 477974001908 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 477974001909 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 477974001910 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 477974001911 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 477974001912 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 477974001913 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 477974001914 germination protease; Provisional; Region: PRK12362 477974001915 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 477974001916 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 477974001917 S-adenosylmethionine binding site [chemical binding]; other site 477974001918 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 477974001919 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 477974001920 active site 477974001921 (T/H)XGH motif; other site 477974001922 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 477974001923 Nucleoside recognition; Region: Gate; pfam07670 477974001924 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 477974001925 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 477974001926 putative phosphate acyltransferase; Provisional; Region: PRK05331 477974001927 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 477974001928 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 477974001929 dimer interface [polypeptide binding]; other site 477974001930 active site 477974001931 CoA binding pocket [chemical binding]; other site 477974001932 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 477974001933 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 477974001934 FMN binding site [chemical binding]; other site 477974001935 substrate binding site [chemical binding]; other site 477974001936 putative catalytic residue [active] 477974001937 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 477974001938 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 477974001939 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001940 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 477974001941 NAD(P) binding site [chemical binding]; other site 477974001942 active site 477974001943 acyl carrier protein; Provisional; Region: acpP; PRK00982 477974001944 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 477974001945 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 477974001946 dimer interface [polypeptide binding]; other site 477974001947 active site 477974001948 ribonuclease III; Reviewed; Region: rnc; PRK00102 477974001949 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 477974001950 dimerization interface [polypeptide binding]; other site 477974001951 active site 477974001952 metal binding site [ion binding]; metal-binding site 477974001953 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 477974001954 dsRNA binding site [nucleotide binding]; other site 477974001955 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 477974001956 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 477974001957 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 477974001958 P loop; other site 477974001959 GTP binding site [chemical binding]; other site 477974001960 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 477974001961 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 477974001962 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 477974001963 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 477974001964 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 477974001965 homotetramer interface [polypeptide binding]; other site 477974001966 ligand binding site [chemical binding]; other site 477974001967 catalytic site [active] 477974001968 NAD binding site [chemical binding]; other site 477974001969 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 477974001970 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 477974001971 intersubunit interface [polypeptide binding]; other site 477974001972 active site 477974001973 Zn2+ binding site [ion binding]; other site 477974001974 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 477974001975 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 477974001976 active site 477974001977 putative substrate binding pocket [chemical binding]; other site 477974001978 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 477974001979 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 477974001980 inhibitor-cofactor binding pocket; inhibition site 477974001981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974001982 catalytic residue [active] 477974001983 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 477974001984 DNA binding residues [nucleotide binding] 477974001985 signal recognition particle protein; Provisional; Region: PRK10867 477974001986 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 477974001987 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 477974001988 P loop; other site 477974001989 GTP binding site [chemical binding]; other site 477974001990 Signal peptide binding domain; Region: SRP_SPB; pfam02978 477974001991 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 477974001992 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 477974001993 hypothetical protein; Provisional; Region: PRK00468 477974001994 G-X-X-G motif; other site 477974001995 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 477974001996 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 477974001997 RimM N-terminal domain; Region: RimM; pfam01782 477974001998 PRC-barrel domain; Region: PRC; pfam05239 477974001999 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 477974002000 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 477974002001 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 477974002002 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 477974002003 Catalytic site [active] 477974002004 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 477974002005 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 477974002006 GTP/Mg2+ binding site [chemical binding]; other site 477974002007 G4 box; other site 477974002008 G5 box; other site 477974002009 G1 box; other site 477974002010 Switch I region; other site 477974002011 G2 box; other site 477974002012 G3 box; other site 477974002013 Switch II region; other site 477974002014 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 477974002015 RNA/DNA hybrid binding site [nucleotide binding]; other site 477974002016 active site 477974002017 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 477974002018 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 477974002019 putative active site [active] 477974002020 putative metal binding site [ion binding]; other site 477974002021 hypothetical protein; Reviewed; Region: PRK12497 477974002022 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 477974002023 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 477974002024 FeS/SAM binding site; other site 477974002025 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 477974002026 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 477974002027 putative ligand binding site [chemical binding]; other site 477974002028 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 477974002029 TM-ABC transporter signature motif; other site 477974002030 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 477974002031 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 477974002032 TM-ABC transporter signature motif; other site 477974002033 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 477974002034 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 477974002035 Walker A/P-loop; other site 477974002036 ATP binding site [chemical binding]; other site 477974002037 Q-loop/lid; other site 477974002038 ABC transporter signature motif; other site 477974002039 Walker B; other site 477974002040 D-loop; other site 477974002041 H-loop/switch region; other site 477974002042 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 477974002043 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 477974002044 Walker A/P-loop; other site 477974002045 ATP binding site [chemical binding]; other site 477974002046 Q-loop/lid; other site 477974002047 ABC transporter signature motif; other site 477974002048 Walker B; other site 477974002049 D-loop; other site 477974002050 H-loop/switch region; other site 477974002051 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 477974002052 S-adenosylmethionine binding site [chemical binding]; other site 477974002053 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 477974002054 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 477974002055 dimer interface [polypeptide binding]; other site 477974002056 active site 477974002057 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 477974002058 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 477974002059 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 477974002060 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 477974002061 putative active site [active] 477974002062 heme pocket [chemical binding]; other site 477974002063 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 477974002064 dimer interface [polypeptide binding]; other site 477974002065 phosphorylation site [posttranslational modification] 477974002066 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 477974002067 ATP binding site [chemical binding]; other site 477974002068 Mg2+ binding site [ion binding]; other site 477974002069 G-X-G motif; other site 477974002070 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 477974002071 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 477974002072 PAS domain; Region: PAS; smart00091 477974002073 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 477974002074 putative active site [active] 477974002075 heme pocket [chemical binding]; other site 477974002076 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 477974002077 dimer interface [polypeptide binding]; other site 477974002078 phosphorylation site [posttranslational modification] 477974002079 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 477974002080 ATP binding site [chemical binding]; other site 477974002081 G-X-G motif; other site 477974002082 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 477974002083 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 477974002084 active site 477974002085 phosphorylation site [posttranslational modification] 477974002086 intermolecular recognition site; other site 477974002087 dimerization interface [polypeptide binding]; other site 477974002088 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974002089 Zn2+ binding site [ion binding]; other site 477974002090 Mg2+ binding site [ion binding]; other site 477974002091 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 477974002092 NADPH bind site [chemical binding]; other site 477974002093 putative FMN binding site [chemical binding]; other site 477974002094 Sensory domain found in PocR; Region: PocR; pfam10114 477974002095 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 477974002096 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 477974002097 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 477974002098 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 477974002099 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974002100 Zn2+ binding site [ion binding]; other site 477974002101 Mg2+ binding site [ion binding]; other site 477974002102 Cache domain; Region: Cache_1; pfam02743 477974002103 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 477974002104 dimerization interface [polypeptide binding]; other site 477974002105 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 477974002106 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 477974002107 dimer interface [polypeptide binding]; other site 477974002108 putative CheW interface [polypeptide binding]; other site 477974002109 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 477974002110 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 477974002111 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 477974002112 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 477974002113 Protein of unknown function (DUF1670); Region: DUF1670; pfam07900 477974002114 circadian clock protein KaiC; Reviewed; Region: PRK09302 477974002115 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 477974002116 Walker A motif; other site 477974002117 ATP binding site [chemical binding]; other site 477974002118 Walker B motif; other site 477974002119 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 477974002120 ATP binding site [chemical binding]; other site 477974002121 Walker B motif; other site 477974002122 GAF domain; Region: GAF_3; pfam13492 477974002123 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 477974002124 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974002125 metal binding site [ion binding]; metal-binding site 477974002126 active site 477974002127 I-site; other site 477974002128 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 477974002129 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 477974002130 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974002131 Zn2+ binding site [ion binding]; other site 477974002132 Mg2+ binding site [ion binding]; other site 477974002133 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 477974002134 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 477974002135 Transposase domain (DUF772); Region: DUF772; pfam05598 477974002136 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974002137 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 477974002138 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 477974002139 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974002140 metal binding site [ion binding]; metal-binding site 477974002141 active site 477974002142 I-site; other site 477974002143 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 477974002144 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974002145 metal binding site [ion binding]; metal-binding site 477974002146 active site 477974002147 I-site; other site 477974002148 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 477974002149 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 477974002150 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 477974002151 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 477974002152 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 477974002153 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 477974002154 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 477974002155 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 477974002156 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 477974002157 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 477974002158 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974002159 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 477974002160 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 477974002161 DNA methylase; Region: N6_N4_Mtase; pfam01555 477974002162 DNA methylase; Region: N6_N4_Mtase; pfam01555 477974002163 Restriction endonuclease; Region: Mrr_cat; pfam04471 477974002164 Uncharacterized conserved protein [Function unknown]; Region: COG4748 477974002165 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 477974002166 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 477974002167 non-specific DNA binding site [nucleotide binding]; other site 477974002168 salt bridge; other site 477974002169 sequence-specific DNA binding site [nucleotide binding]; other site 477974002170 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 477974002171 Catalytic site [active] 477974002172 Nuclease-related domain; Region: NERD; pfam08378 477974002173 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974002174 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 477974002175 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 477974002176 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 477974002177 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 477974002178 Probable transposase; Region: OrfB_IS605; pfam01385 477974002179 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 477974002180 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 477974002181 Transposase [DNA replication, recombination, and repair]; Region: COG5421 477974002182 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 477974002183 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 477974002184 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974002185 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 477974002186 active site 477974002187 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 477974002188 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 477974002189 translocation protein TolB; Provisional; Region: tolB; PRK02889 477974002190 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 477974002191 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 477974002192 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 477974002193 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 477974002194 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 477974002195 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 477974002196 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 477974002197 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 477974002198 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 477974002199 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 477974002200 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974002201 HTH-like domain; Region: HTH_21; pfam13276 477974002202 Integrase core domain; Region: rve; pfam00665 477974002203 Transposase; Region: HTH_Tnp_1; cl17663 477974002204 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 477974002205 ATP binding site [chemical binding]; other site 477974002206 Mg2+ binding site [ion binding]; other site 477974002207 G-X-G motif; other site 477974002208 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 477974002209 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 477974002210 active site 477974002211 phosphorylation site [posttranslational modification] 477974002212 intermolecular recognition site; other site 477974002213 dimerization interface [polypeptide binding]; other site 477974002214 LytTr DNA-binding domain; Region: LytTR; smart00850 477974002215 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 477974002216 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 477974002217 LexA repressor; Validated; Region: PRK00215 477974002218 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 477974002219 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 477974002220 Catalytic site [active] 477974002221 DNA polymerase IV; Reviewed; Region: PRK03103 477974002222 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 477974002223 active site 477974002224 DNA binding site [nucleotide binding] 477974002225 Probable transposase; Region: OrfB_IS605; pfam01385 477974002226 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 477974002227 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 477974002228 non-specific DNA binding site [nucleotide binding]; other site 477974002229 salt bridge; other site 477974002230 sequence-specific DNA binding site [nucleotide binding]; other site 477974002231 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 477974002232 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 477974002233 YcfA-like protein; Region: YcfA; cl00752 477974002234 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974002235 PAS domain S-box; Region: sensory_box; TIGR00229 477974002236 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 477974002237 putative active site [active] 477974002238 heme pocket [chemical binding]; other site 477974002239 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 477974002240 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974002241 metal binding site [ion binding]; metal-binding site 477974002242 active site 477974002243 I-site; other site 477974002244 GAF domain; Region: GAF_2; pfam13185 477974002245 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 477974002246 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 477974002247 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 477974002248 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974002249 Zn2+ binding site [ion binding]; other site 477974002250 Mg2+ binding site [ion binding]; other site 477974002251 HsdM N-terminal domain; Region: HsdM_N; pfam12161 477974002252 phosphoenolpyruvate carboxylase, archaeal type; Region: PEPCase_arch; TIGR02751 477974002253 Phosphoenolpyruvate carboxylase; Region: PEPcase_2; pfam14010 477974002254 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 477974002255 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 477974002256 active site 477974002257 DNA binding site [nucleotide binding] 477974002258 Int/Topo IB signature motif; other site 477974002259 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 477974002260 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 477974002261 non-specific DNA binding site [nucleotide binding]; other site 477974002262 salt bridge; other site 477974002263 sequence-specific DNA binding site [nucleotide binding]; other site 477974002264 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 477974002265 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 477974002266 non-specific DNA binding site [nucleotide binding]; other site 477974002267 salt bridge; other site 477974002268 sequence-specific DNA binding site [nucleotide binding]; other site 477974002269 Bacterial Ig-like domain; Region: Big_5; pfam13205 477974002270 Bacterial Ig-like domain; Region: Big_5; pfam13205 477974002271 S-layer homology domain; Region: SLH; pfam00395 477974002272 S-layer homology domain; Region: SLH; pfam00395 477974002273 S-layer homology domain; Region: SLH; pfam00395 477974002274 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974002275 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 477974002276 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 477974002277 ligand binding site [chemical binding]; other site 477974002278 flexible hinge region; other site 477974002279 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 477974002280 putative switch regulator; other site 477974002281 non-specific DNA interactions [nucleotide binding]; other site 477974002282 DNA binding site [nucleotide binding] 477974002283 sequence specific DNA binding site [nucleotide binding]; other site 477974002284 putative cAMP binding site [chemical binding]; other site 477974002285 Probable transposase; Region: OrfB_IS605; pfam01385 477974002286 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 477974002287 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 477974002288 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 477974002289 putative NTP binding site [chemical binding]; other site 477974002290 Integrase core domain; Region: rve; pfam00665 477974002291 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 477974002292 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 477974002293 transmembrane helices; other site 477974002294 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 477974002295 L-aspartate oxidase; Provisional; Region: PRK06175 477974002296 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 477974002297 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 477974002298 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 477974002299 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 477974002300 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 477974002301 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 477974002302 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974002303 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974002304 Staphylococcal nuclease homologue; Region: SNase; pfam00565 477974002305 Catalytic site; other site 477974002306 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 477974002307 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 477974002308 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 477974002309 active site 477974002310 DNA binding site [nucleotide binding] 477974002311 Int/Topo IB signature motif; other site 477974002312 Restriction endonuclease; Region: Mrr_cat; pfam04471 477974002313 Uncharacterized conserved protein [Function unknown]; Region: COG1479 477974002314 Protein of unknown function DUF262; Region: DUF262; pfam03235 477974002315 Uncharacterized conserved protein [Function unknown]; Region: COG3472 477974002316 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 477974002317 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 477974002318 Active Sites [active] 477974002319 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 477974002320 4Fe-4S binding domain; Region: Fer4; pfam00037 477974002321 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 477974002322 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 477974002323 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 477974002324 putative active site pocket [active] 477974002325 dimerization interface [polypeptide binding]; other site 477974002326 putative catalytic residue [active] 477974002327 conserved hypothetical protein; Region: MG423; TIGR00649 477974002328 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 477974002329 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 477974002330 AAA domain; Region: AAA_28; pfam13521 477974002331 AAA domain; Region: AAA_17; pfam13207 477974002332 RRXRR protein; Region: RRXRR; pfam14239 477974002333 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 477974002334 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 477974002335 Walker A motif; other site 477974002336 ATP binding site [chemical binding]; other site 477974002337 Walker B motif; other site 477974002338 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 477974002339 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 477974002340 ATP binding site [chemical binding]; other site 477974002341 putative Mg++ binding site [ion binding]; other site 477974002342 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 477974002343 nucleotide binding region [chemical binding]; other site 477974002344 ATP-binding site [chemical binding]; other site 477974002345 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 477974002346 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974002347 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 477974002348 AAA domain; Region: AAA_30; pfam13604 477974002349 Family description; Region: UvrD_C_2; pfam13538 477974002350 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 477974002351 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 477974002352 catalytic residues [active] 477974002353 catalytic nucleophile [active] 477974002354 Recombinase; Region: Recombinase; pfam07508 477974002355 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 477974002356 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 477974002357 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 477974002358 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 477974002359 Walker A motif; other site 477974002360 ATP binding site [chemical binding]; other site 477974002361 Walker B motif; other site 477974002362 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 477974002363 FOG: CBS domain [General function prediction only]; Region: COG0517 477974002364 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 477974002365 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 477974002366 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974002367 metal binding site [ion binding]; metal-binding site 477974002368 active site 477974002369 I-site; other site 477974002370 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 477974002371 PAS fold; Region: PAS_4; pfam08448 477974002372 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 477974002373 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974002374 metal binding site [ion binding]; metal-binding site 477974002375 active site 477974002376 I-site; other site 477974002377 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 477974002378 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974002379 Zn2+ binding site [ion binding]; other site 477974002380 Mg2+ binding site [ion binding]; other site 477974002381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 477974002382 FIST N domain; Region: FIST; pfam08495 477974002383 FIST C domain; Region: FIST_C; pfam10442 477974002384 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 477974002385 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 477974002386 motif II; other site 477974002387 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 477974002388 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 477974002389 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 477974002390 Clp protease; Region: CLP_protease; pfam00574 477974002391 active site 477974002392 YlzJ-like protein; Region: YlzJ; pfam14035 477974002393 Uncharacterized conserved protein [Function unknown]; Region: COG0432 477974002394 Minimal MMP-like domain found in Thermus thermophilus hypothetical protein TTHA0227 and similar proteins; Region: MMP_TTHA0227; cd12953 477974002395 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 477974002396 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 477974002397 intersubunit interface [polypeptide binding]; other site 477974002398 Bacitracin resistance protein BacA; Region: BacA; pfam02673 477974002399 Bifunctional nuclease; Region: DNase-RNase; pfam02577 477974002400 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 477974002401 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 477974002402 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 477974002403 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 477974002404 Helix-turn-helix domain; Region: HTH_25; pfam13413 477974002405 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 477974002406 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 477974002407 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 477974002408 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 477974002409 FeS/SAM binding site; other site 477974002410 TRAM domain; Region: TRAM; cl01282 477974002411 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 477974002412 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 477974002413 Walker A motif; other site 477974002414 ATP binding site [chemical binding]; other site 477974002415 Walker B motif; other site 477974002416 arginine finger; other site 477974002417 Peptidase family M41; Region: Peptidase_M41; pfam01434 477974002418 competence damage-inducible protein A; Provisional; Region: PRK00549 477974002419 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 477974002420 putative MPT binding site; other site 477974002421 Competence-damaged protein; Region: CinA; pfam02464 477974002422 recombinase A; Provisional; Region: recA; PRK09354 477974002423 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 477974002424 hexamer interface [polypeptide binding]; other site 477974002425 Walker A motif; other site 477974002426 ATP binding site [chemical binding]; other site 477974002427 Walker B motif; other site 477974002428 Staphylococcal nuclease homologue; Region: SNase; pfam00565 477974002429 Catalytic site; other site 477974002430 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 477974002431 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 477974002432 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 477974002433 Probable transposase; Region: OrfB_IS605; pfam01385 477974002434 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 477974002435 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974002436 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974002437 Protein of unknown function (DUF554); Region: DUF554; pfam04474 477974002438 N-terminal putative catalytic domain of mainly uncharacterized prokaryotic proteins similar to archaeal thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU_like_1; cd10797 477974002439 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 477974002440 active site 477974002441 catalytic site [active] 477974002442 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 477974002443 trehalose synthase; Region: treS_nterm; TIGR02456 477974002444 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 477974002445 active site 477974002446 catalytic site [active] 477974002447 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 477974002448 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 477974002449 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 477974002450 dimer interface [polypeptide binding]; other site 477974002451 catalytic triad [active] 477974002452 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 477974002453 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 477974002454 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 477974002455 dimer interface [polypeptide binding]; other site 477974002456 putative CheW interface [polypeptide binding]; other site 477974002457 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 477974002458 ABC1 family; Region: ABC1; pfam03109 477974002459 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 477974002460 active site 477974002461 ATP binding site [chemical binding]; other site 477974002462 Uncharacterized membrane protein [Function unknown]; Region: COG3949 477974002463 Uncharacterized membrane protein [Function unknown]; Region: COG3949 477974002464 Protein of unknown function (DUF1405); Region: DUF1405; pfam07187 477974002465 ribulose-1,5-biphosphate synthetase; Provisional; Region: PRK04176 477974002466 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 477974002467 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 477974002468 TrkA-C domain; Region: TrkA_C; pfam02080 477974002469 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 477974002470 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 477974002471 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 477974002472 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974002473 putative ADP-binding pocket [chemical binding]; other site 477974002474 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 477974002475 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 477974002476 Substrate binding site; other site 477974002477 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 477974002478 phosphomannomutase CpsG; Provisional; Region: PRK15414 477974002479 active site 477974002480 substrate binding site [chemical binding]; other site 477974002481 metal binding site [ion binding]; metal-binding site 477974002482 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 477974002483 active site 477974002484 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 477974002485 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974002486 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 477974002487 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 477974002488 Uncharacterized conserved protein [Function unknown]; Region: COG3937 477974002489 Sulfatase; Region: Sulfatase; cl17466 477974002490 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 477974002491 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 477974002492 ACS interaction site; other site 477974002493 CODH interaction site; other site 477974002494 metal cluster binding site [ion binding]; other site 477974002495 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 477974002496 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 477974002497 metal cluster binding site [ion binding]; other site 477974002498 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 477974002499 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 477974002500 Putative Fe-S cluster; Region: FeS; pfam04060 477974002501 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 477974002502 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 477974002503 catalytic loop [active] 477974002504 iron binding site [ion binding]; other site 477974002505 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 477974002506 P-loop; other site 477974002507 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 477974002508 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 477974002509 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 477974002510 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 477974002511 substrate binding pocket [chemical binding]; other site 477974002512 dimer interface [polypeptide binding]; other site 477974002513 inhibitor binding site; inhibition site 477974002514 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 477974002515 4Fe-4S binding domain; Region: Fer4; pfam00037 477974002516 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 477974002517 Ferredoxin [Energy production and conversion]; Region: COG1146 477974002518 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 477974002519 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 477974002520 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 477974002521 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 477974002522 FAD binding site [chemical binding]; other site 477974002523 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 477974002524 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 477974002525 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 477974002526 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 477974002527 Ligand Binding Site [chemical binding]; other site 477974002528 Tetratricopeptide repeat; Region: TPR_16; pfam13432 477974002529 O-methyltransferase; Region: Methyltransf_2; pfam00891 477974002530 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 477974002531 Protein of unknown function (DUF456); Region: DUF456; pfam04306 477974002532 Protein of unknown function (DUF503); Region: DUF503; pfam04456 477974002533 Transposase IS200 like; Region: Y1_Tnp; pfam01797 477974002534 Probable transposase; Region: OrfB_IS605; pfam01385 477974002535 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 477974002536 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 477974002537 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 477974002538 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 477974002539 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 477974002540 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 477974002541 Walker A motif; other site 477974002542 ATP binding site [chemical binding]; other site 477974002543 Walker B motif; other site 477974002544 arginine finger; other site 477974002545 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 477974002546 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 477974002547 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 477974002548 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 477974002549 CoA binding domain; Region: CoA_binding_2; pfam13380 477974002550 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 477974002551 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 477974002552 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 477974002553 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 477974002554 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 477974002555 DRTGG domain; Region: DRTGG; pfam07085 477974002556 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 477974002557 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 477974002558 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 477974002559 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 477974002560 DHH family; Region: DHH; pfam01368 477974002561 DHHA1 domain; Region: DHHA1; pfam02272 477974002562 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 477974002563 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974002564 Zn2+ binding site [ion binding]; other site 477974002565 Mg2+ binding site [ion binding]; other site 477974002566 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 477974002567 synthetase active site [active] 477974002568 NTP binding site [chemical binding]; other site 477974002569 metal binding site [ion binding]; metal-binding site 477974002570 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 477974002571 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 477974002572 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 477974002573 dimerization interface [polypeptide binding]; other site 477974002574 putative tRNAtyr binding site [nucleotide binding]; other site 477974002575 putative active site [active] 477974002576 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 477974002577 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 477974002578 YcfA-like protein; Region: YcfA; cl00752 477974002579 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 477974002580 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 477974002581 dimer interface [polypeptide binding]; other site 477974002582 motif 1; other site 477974002583 active site 477974002584 motif 2; other site 477974002585 motif 3; other site 477974002586 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 477974002587 anticodon binding site; other site 477974002588 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 477974002589 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 477974002590 dimer interface [polypeptide binding]; other site 477974002591 anticodon binding site; other site 477974002592 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 477974002593 homodimer interface [polypeptide binding]; other site 477974002594 motif 1; other site 477974002595 active site 477974002596 motif 2; other site 477974002597 GAD domain; Region: GAD; pfam02938 477974002598 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 477974002599 active site 477974002600 motif 3; other site 477974002601 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 477974002602 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 477974002603 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 477974002604 catalytic residue [active] 477974002605 hypothetical protein; Provisional; Region: PRK04334 477974002606 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 477974002607 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 477974002608 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 477974002609 Domain of unknown function DUF39; Region: DUF39; pfam01837 477974002610 putative methanogenesis marker 16 metalloprotein; Region: methan_mark_16; TIGR03287 477974002611 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 477974002612 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 477974002613 motif 1; other site 477974002614 active site 477974002615 motif 2; other site 477974002616 motif 3; other site 477974002617 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 477974002618 hypothetical protein; Provisional; Region: PRK05473 477974002619 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 477974002620 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 477974002621 active site 477974002622 catalytic tetrad [active] 477974002623 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 477974002624 4Fe-4S binding domain; Region: Fer4; pfam00037 477974002625 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 477974002626 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 477974002627 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 477974002628 VanW like protein; Region: VanW; pfam04294 477974002629 G5 domain; Region: G5; pfam07501 477974002630 YceG-like family; Region: YceG; pfam02618 477974002631 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 477974002632 dimerization interface [polypeptide binding]; other site 477974002633 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 477974002634 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 477974002635 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 477974002636 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 477974002637 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 477974002638 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 477974002639 catalytic residues [active] 477974002640 ribosome maturation protein RimP; Reviewed; Region: PRK00092 477974002641 Sm and related proteins; Region: Sm_like; cl00259 477974002642 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 477974002643 putative oligomer interface [polypeptide binding]; other site 477974002644 putative RNA binding site [nucleotide binding]; other site 477974002645 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 477974002646 NusA N-terminal domain; Region: NusA_N; pfam08529 477974002647 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 477974002648 RNA binding site [nucleotide binding]; other site 477974002649 homodimer interface [polypeptide binding]; other site 477974002650 NusA-like KH domain; Region: KH_5; pfam13184 477974002651 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 477974002652 G-X-X-G motif; other site 477974002653 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 477974002654 putative RNA binding cleft [nucleotide binding]; other site 477974002655 Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]; Region: RPL8A; COG1358 477974002656 translation initiation factor IF-2; Region: IF-2; TIGR00487 477974002657 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 477974002658 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 477974002659 G1 box; other site 477974002660 putative GEF interaction site [polypeptide binding]; other site 477974002661 GTP/Mg2+ binding site [chemical binding]; other site 477974002662 Switch I region; other site 477974002663 G2 box; other site 477974002664 G3 box; other site 477974002665 Switch II region; other site 477974002666 G4 box; other site 477974002667 G5 box; other site 477974002668 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 477974002669 Translation-initiation factor 2; Region: IF-2; pfam11987 477974002670 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 477974002671 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 477974002672 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 477974002673 DHH family; Region: DHH; pfam01368 477974002674 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 477974002675 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 477974002676 RNA binding site [nucleotide binding]; other site 477974002677 active site 477974002678 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 477974002679 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 477974002680 active site 477974002681 Riboflavin kinase; Region: Flavokinase; pfam01687 477974002682 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 477974002683 16S/18S rRNA binding site [nucleotide binding]; other site 477974002684 S13e-L30e interaction site [polypeptide binding]; other site 477974002685 25S rRNA binding site [nucleotide binding]; other site 477974002686 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 477974002687 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 477974002688 RNase E interface [polypeptide binding]; other site 477974002689 trimer interface [polypeptide binding]; other site 477974002690 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 477974002691 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 477974002692 RNase E interface [polypeptide binding]; other site 477974002693 trimer interface [polypeptide binding]; other site 477974002694 active site 477974002695 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 477974002696 putative nucleic acid binding region [nucleotide binding]; other site 477974002697 G-X-X-G motif; other site 477974002698 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 477974002699 RNA binding site [nucleotide binding]; other site 477974002700 domain interface; other site 477974002701 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 477974002702 NodB motif; other site 477974002703 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 477974002704 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 477974002705 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 477974002706 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 477974002707 trimer interface [polypeptide binding]; other site 477974002708 active site 477974002709 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 477974002710 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 477974002711 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 477974002712 active site 477974002713 active site 477974002714 dihydrodipicolinate reductase; Provisional; Region: PRK00048 477974002715 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 477974002716 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 477974002717 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 477974002718 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 477974002719 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 477974002720 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 477974002721 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 477974002722 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 477974002723 dihydrodipicolinate synthase; Region: dapA; TIGR00674 477974002724 dimer interface [polypeptide binding]; other site 477974002725 active site 477974002726 catalytic residue [active] 477974002727 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 477974002728 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 477974002729 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 477974002730 lipoprotein signal peptidase; Provisional; Region: PRK14787 477974002731 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 477974002732 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 477974002733 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 477974002734 RNA binding surface [nucleotide binding]; other site 477974002735 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 477974002736 active site 477974002737 Helix-turn-helix domain; Region: HTH_28; pfam13518 477974002738 Winged helix-turn helix; Region: HTH_29; pfam13551 477974002739 Integrase core domain; Region: rve; pfam00665 477974002740 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 477974002741 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 477974002742 Walker A motif; other site 477974002743 ATP binding site [chemical binding]; other site 477974002744 Walker B motif; other site 477974002745 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 477974002746 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 477974002747 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 477974002748 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 477974002749 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 477974002750 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 477974002751 Pilus assembly protein, PilO; Region: PilO; cl01234 477974002752 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 477974002753 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 477974002754 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 477974002755 Walker A motif; other site 477974002756 ATP binding site [chemical binding]; other site 477974002757 Walker B motif; other site 477974002758 Transposase [DNA replication, recombination, and repair]; Region: COG5421 477974002759 Secretin and TonB N terminus short domain; Region: STN; pfam07660 477974002760 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 477974002761 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 477974002762 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 477974002763 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 477974002764 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 477974002765 Walker A motif; other site 477974002766 ATP binding site [chemical binding]; other site 477974002767 Walker B motif; other site 477974002768 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 477974002769 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 477974002770 Walker A motif; other site 477974002771 ATP binding site [chemical binding]; other site 477974002772 Walker B motif; other site 477974002773 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 477974002774 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 477974002775 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 477974002776 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 477974002777 Type II transport protein GspH; Region: GspH; pfam12019 477974002778 type II secretion system protein I; Region: gspI; TIGR01707 477974002779 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 477974002780 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 477974002781 Cell division protein FtsA; Region: FtsA; pfam14450 477974002782 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 477974002783 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974002784 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 477974002785 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 477974002786 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974002787 Zn2+ binding site [ion binding]; other site 477974002788 Mg2+ binding site [ion binding]; other site 477974002789 Protein of unknown function (DUF342); Region: DUF342; pfam03961 477974002790 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974002791 sporulation sigma factor SigK; Reviewed; Region: PRK05803 477974002792 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974002793 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 477974002794 DNA binding residues [nucleotide binding] 477974002795 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 477974002796 oligomeric interface; other site 477974002797 putative active site [active] 477974002798 homodimer interface [polypeptide binding]; other site 477974002799 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 477974002800 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 477974002801 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 477974002802 GTP binding site; other site 477974002803 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 477974002804 Walker A motif; other site 477974002805 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 477974002806 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 477974002807 active site 477974002808 motif I; other site 477974002809 motif II; other site 477974002810 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 477974002811 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 477974002812 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 477974002813 shikimate binding site; other site 477974002814 NAD(P) binding site [chemical binding]; other site 477974002815 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 477974002816 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 477974002817 Tetramer interface [polypeptide binding]; other site 477974002818 active site 477974002819 FMN-binding site [chemical binding]; other site 477974002820 shikimate kinase; Provisional; Region: PRK13947 477974002821 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 477974002822 ADP binding site [chemical binding]; other site 477974002823 magnesium binding site [ion binding]; other site 477974002824 putative shikimate binding site; other site 477974002825 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 477974002826 active site 477974002827 dimer interface [polypeptide binding]; other site 477974002828 metal binding site [ion binding]; metal-binding site 477974002829 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 477974002830 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 477974002831 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 477974002832 Walker A motif; other site 477974002833 ATP binding site [chemical binding]; other site 477974002834 Walker B motif; other site 477974002835 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 477974002836 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 477974002837 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 477974002838 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 477974002839 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 477974002840 Type II transport protein GspH; Region: GspH; pfam12019 477974002841 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 477974002842 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 477974002843 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 477974002844 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 477974002845 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 477974002846 Dehydroquinase class II; Region: DHquinase_II; pfam01220 477974002847 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 477974002848 trimer interface [polypeptide binding]; other site 477974002849 active site 477974002850 dimer interface [polypeptide binding]; other site 477974002851 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 477974002852 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 477974002853 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 477974002854 active site 477974002855 elongation factor P; Validated; Region: PRK00529 477974002856 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 477974002857 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 477974002858 RNA binding site [nucleotide binding]; other site 477974002859 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 477974002860 RNA binding site [nucleotide binding]; other site 477974002861 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 477974002862 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 477974002863 Walker A motif; other site 477974002864 ATP binding site [chemical binding]; other site 477974002865 Walker B motif; other site 477974002866 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 477974002867 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 477974002868 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 477974002869 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 477974002870 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 477974002871 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 477974002872 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 477974002873 pyruvate carboxylase subunit B; Validated; Region: PRK09282 477974002874 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 477974002875 active site 477974002876 catalytic residues [active] 477974002877 metal binding site [ion binding]; metal-binding site 477974002878 homodimer binding site [polypeptide binding]; other site 477974002879 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 477974002880 carboxyltransferase (CT) interaction site; other site 477974002881 biotinylation site [posttranslational modification]; other site 477974002882 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 477974002883 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 477974002884 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 477974002885 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 477974002886 Asp23 family; Region: Asp23; pfam03780 477974002887 Asp23 family; Region: Asp23; pfam03780 477974002888 Small integral membrane protein (DUF2273); Region: DUF2273; pfam10031 477974002889 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 477974002890 putative RNA binding site [nucleotide binding]; other site 477974002891 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 477974002892 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 477974002893 generic binding surface II; other site 477974002894 generic binding surface I; other site 477974002895 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 477974002896 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 477974002897 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 477974002898 homodimer interface [polypeptide binding]; other site 477974002899 NADP binding site [chemical binding]; other site 477974002900 substrate binding site [chemical binding]; other site 477974002901 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 477974002902 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 477974002903 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 477974002904 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 477974002905 substrate binding pocket [chemical binding]; other site 477974002906 chain length determination region; other site 477974002907 substrate-Mg2+ binding site; other site 477974002908 catalytic residues [active] 477974002909 aspartate-rich region 1; other site 477974002910 active site lid residues [active] 477974002911 aspartate-rich region 2; other site 477974002912 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 477974002913 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 477974002914 TPP-binding site; other site 477974002915 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 477974002916 PYR/PP interface [polypeptide binding]; other site 477974002917 dimer interface [polypeptide binding]; other site 477974002918 TPP binding site [chemical binding]; other site 477974002919 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 477974002920 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 477974002921 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 477974002922 RNA binding surface [nucleotide binding]; other site 477974002923 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 477974002924 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 477974002925 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 477974002926 Arginine repressor [Transcription]; Region: ArgR; COG1438 477974002927 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 477974002928 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 477974002929 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 477974002930 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 477974002931 Walker A/P-loop; other site 477974002932 ATP binding site [chemical binding]; other site 477974002933 Q-loop/lid; other site 477974002934 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 477974002935 ABC transporter signature motif; other site 477974002936 Walker B; other site 477974002937 D-loop; other site 477974002938 H-loop/switch region; other site 477974002939 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 477974002940 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 477974002941 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 477974002942 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 477974002943 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 477974002944 GatB domain; Region: GatB_Yqey; smart00845 477974002945 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 477974002946 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 477974002947 active site 477974002948 catalytic residues [active] 477974002949 metal binding site [ion binding]; metal-binding site 477974002950 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 477974002951 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 477974002952 substrate binding site [chemical binding]; other site 477974002953 ligand binding site [chemical binding]; other site 477974002954 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 477974002955 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 477974002956 substrate binding site [chemical binding]; other site 477974002957 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 477974002958 isocitrate dehydrogenase; Validated; Region: PRK06451 477974002959 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974002960 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 477974002961 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 477974002962 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 477974002963 active site 477974002964 Substrate binding site; other site 477974002965 Mg++ binding site; other site 477974002966 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 477974002967 putative trimer interface [polypeptide binding]; other site 477974002968 putative CoA binding site [chemical binding]; other site 477974002969 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 477974002970 GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an...; Region: MPG1_transferase; cd05805 477974002971 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 477974002972 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 477974002973 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 477974002974 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 477974002975 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 477974002976 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 477974002977 Uncharacterized conserved protein [Function unknown]; Region: COG1543 477974002978 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 477974002979 active site 477974002980 substrate binding site [chemical binding]; other site 477974002981 catalytic site [active] 477974002982 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 477974002983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 477974002984 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 477974002985 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 477974002986 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 477974002987 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 477974002988 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 477974002989 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 477974002990 active site 477974002991 PHP Thumb interface [polypeptide binding]; other site 477974002992 metal binding site [ion binding]; metal-binding site 477974002993 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 477974002994 generic binding surface I; other site 477974002995 generic binding surface II; other site 477974002996 transcription attenuation protein MtrB; Provisional; Region: PRK13251 477974002997 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 477974002998 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 477974002999 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 477974003000 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 477974003001 6-phosphofructokinase; Provisional; Region: PRK03202 477974003002 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 477974003003 active site 477974003004 ADP/pyrophosphate binding site [chemical binding]; other site 477974003005 dimerization interface [polypeptide binding]; other site 477974003006 allosteric effector site; other site 477974003007 fructose-1,6-bisphosphate binding site; other site 477974003008 pyruvate kinase; Provisional; Region: PRK06354 477974003009 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 477974003010 domain interfaces; other site 477974003011 active site 477974003012 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 477974003013 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 477974003014 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 477974003015 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 477974003016 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 477974003017 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 477974003018 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 477974003019 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 477974003020 NifU-like domain; Region: NifU; cl00484 477974003021 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 477974003022 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 477974003023 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974003024 Zn2+ binding site [ion binding]; other site 477974003025 Mg2+ binding site [ion binding]; other site 477974003026 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 477974003027 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 477974003028 putative active site [active] 477974003029 metal binding site [ion binding]; metal-binding site 477974003030 homodimer binding site [polypeptide binding]; other site 477974003031 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 477974003032 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 477974003033 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 477974003034 active site 477974003035 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 477974003036 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 477974003037 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 477974003038 catalytic core [active] 477974003039 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 477974003040 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 477974003041 FeS/SAM binding site; other site 477974003042 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 477974003043 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 477974003044 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 477974003045 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 477974003046 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 477974003047 active site 477974003048 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 477974003049 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 477974003050 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 477974003051 FeS/SAM binding site; other site 477974003052 homoserine dehydrogenase; Provisional; Region: PRK06349 477974003053 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 477974003054 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 477974003055 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 477974003056 homoserine kinase; Provisional; Region: PRK01212 477974003057 aspartate kinase; Reviewed; Region: PRK06635 477974003058 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 477974003059 putative catalytic residues [active] 477974003060 putative nucleotide binding site [chemical binding]; other site 477974003061 putative aspartate binding site [chemical binding]; other site 477974003062 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 477974003063 putative allosteric regulatory site; other site 477974003064 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 477974003065 putative allosteric regulatory residue; other site 477974003066 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 477974003067 ATP-sulfurylase; Region: ATPS; cd00517 477974003068 active site 477974003069 HXXH motif; other site 477974003070 flexible loop; other site 477974003071 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 477974003072 dimerization interface [polypeptide binding]; other site 477974003073 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 477974003074 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 477974003075 dimer interface [polypeptide binding]; other site 477974003076 putative CheW interface [polypeptide binding]; other site 477974003077 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 477974003078 ATP-sulfurylase; Region: ATPS; cd00517 477974003079 active site 477974003080 HXXH motif; other site 477974003081 flexible loop; other site 477974003082 4Fe-4S binding domain; Region: Fer4; cl02805 477974003083 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 477974003084 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 477974003085 putative active site [active] 477974003086 putative metal binding site [ion binding]; other site 477974003087 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 477974003088 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 477974003089 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 477974003090 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 477974003091 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 477974003092 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 477974003093 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 477974003094 substrate binding pocket [chemical binding]; other site 477974003095 substrate-Mg2+ binding site; other site 477974003096 aspartate-rich region 1; other site 477974003097 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 477974003098 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 477974003099 S-adenosylmethionine binding site [chemical binding]; other site 477974003100 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 477974003101 UbiA prenyltransferase family; Region: UbiA; pfam01040 477974003102 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 477974003103 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 477974003104 FeS/SAM binding site; other site 477974003105 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 477974003106 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 477974003107 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 477974003108 FeS/SAM binding site; other site 477974003109 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 477974003110 selenocysteine synthase; Provisional; Region: PRK04311 477974003111 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 477974003112 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 477974003113 catalytic residue [active] 477974003114 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 477974003115 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 477974003116 G1 box; other site 477974003117 putative GEF interaction site [polypeptide binding]; other site 477974003118 GTP/Mg2+ binding site [chemical binding]; other site 477974003119 Switch I region; other site 477974003120 G2 box; other site 477974003121 G3 box; other site 477974003122 Switch II region; other site 477974003123 G4 box; other site 477974003124 G5 box; other site 477974003125 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 477974003126 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 477974003127 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 477974003128 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 477974003129 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 477974003130 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 477974003131 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 477974003132 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 477974003133 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 477974003134 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 477974003135 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 477974003136 NADH dehydrogenase; Region: NADHdh; cl00469 477974003137 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 477974003138 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 477974003139 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 477974003140 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 477974003141 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 477974003142 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 477974003143 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 477974003144 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 477974003145 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974003146 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 477974003147 putative ADP-binding pocket [chemical binding]; other site 477974003148 EDD domain protein, DegV family; Region: DegV; TIGR00762 477974003149 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 477974003150 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 477974003151 DAK2 domain; Region: Dak2; pfam02734 477974003152 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974003153 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 477974003154 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 477974003155 HflX GTPase family; Region: HflX; cd01878 477974003156 G1 box; other site 477974003157 GTP/Mg2+ binding site [chemical binding]; other site 477974003158 Switch I region; other site 477974003159 G2 box; other site 477974003160 G3 box; other site 477974003161 Switch II region; other site 477974003162 G4 box; other site 477974003163 G5 box; other site 477974003164 adenylate kinase; Reviewed; Region: adk; PRK00279 477974003165 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 477974003166 AMP-binding site [chemical binding]; other site 477974003167 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 477974003168 Soluble P-type ATPase [General function prediction only]; Region: COG4087 477974003169 Late competence development protein ComFB; Region: ComFB; pfam10719 477974003170 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 477974003171 Uncharacterized conserved protein [Function unknown]; Region: COG1615 477974003172 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 477974003173 phosphofructokinase; Region: PFK_mixed; TIGR02483 477974003174 dimerization interface [polypeptide binding]; other site 477974003175 allosteric effector site; other site 477974003176 active site 477974003177 ADP/pyrophosphate binding site [chemical binding]; other site 477974003178 fructose-1,6-bisphosphate binding site; other site 477974003179 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 477974003180 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 477974003181 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 477974003182 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 477974003183 malate dehydrogenase; Reviewed; Region: PRK06223 477974003184 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 477974003185 NAD(P) binding site [chemical binding]; other site 477974003186 dimer interface [polypeptide binding]; other site 477974003187 tetramer (dimer of dimers) interface [polypeptide binding]; other site 477974003188 substrate binding site [chemical binding]; other site 477974003189 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 477974003190 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 477974003191 putative dimer interface [polypeptide binding]; other site 477974003192 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 477974003193 ABC-2 type transporter; Region: ABC2_membrane; cl17235 477974003194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 477974003195 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 477974003196 Walker A/P-loop; other site 477974003197 ATP binding site [chemical binding]; other site 477974003198 Q-loop/lid; other site 477974003199 ABC transporter signature motif; other site 477974003200 Walker B; other site 477974003201 D-loop; other site 477974003202 H-loop/switch region; other site 477974003203 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 477974003204 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 477974003205 Walker A/P-loop; other site 477974003206 ATP binding site [chemical binding]; other site 477974003207 Q-loop/lid; other site 477974003208 ABC transporter signature motif; other site 477974003209 Walker B; other site 477974003210 D-loop; other site 477974003211 H-loop/switch region; other site 477974003212 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 477974003213 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 477974003214 Walker A/P-loop; other site 477974003215 ATP binding site [chemical binding]; other site 477974003216 Q-loop/lid; other site 477974003217 ABC transporter signature motif; other site 477974003218 Walker B; other site 477974003219 D-loop; other site 477974003220 H-loop/switch region; other site 477974003221 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 477974003222 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 477974003223 TM-ABC transporter signature motif; other site 477974003224 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 477974003225 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 477974003226 TM-ABC transporter signature motif; other site 477974003227 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 477974003228 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 477974003229 EamA-like transporter family; Region: EamA; pfam00892 477974003230 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 477974003231 EamA-like transporter family; Region: EamA; pfam00892 477974003232 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 477974003233 EamA-like transporter family; Region: EamA; pfam00892 477974003234 EamA-like transporter family; Region: EamA; pfam00892 477974003235 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 477974003236 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 477974003237 substrate binding pocket [chemical binding]; other site 477974003238 membrane-bound complex binding site; other site 477974003239 hinge residues; other site 477974003240 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 477974003241 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 477974003242 dimer interface [polypeptide binding]; other site 477974003243 conserved gate region; other site 477974003244 putative PBP binding loops; other site 477974003245 ABC-ATPase subunit interface; other site 477974003246 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 477974003247 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 477974003248 Walker A/P-loop; other site 477974003249 ATP binding site [chemical binding]; other site 477974003250 Q-loop/lid; other site 477974003251 ABC transporter signature motif; other site 477974003252 Walker B; other site 477974003253 D-loop; other site 477974003254 H-loop/switch region; other site 477974003255 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 477974003256 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 477974003257 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 477974003258 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 477974003259 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 477974003260 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 477974003261 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 477974003262 Coenzyme A binding pocket [chemical binding]; other site 477974003263 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 477974003264 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 477974003265 putative active site [active] 477974003266 Beta propeller domain; Region: Beta_propel; pfam09826 477974003267 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 477974003268 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 477974003269 Walker A/P-loop; other site 477974003270 ATP binding site [chemical binding]; other site 477974003271 Q-loop/lid; other site 477974003272 ABC transporter signature motif; other site 477974003273 Walker B; other site 477974003274 D-loop; other site 477974003275 H-loop/switch region; other site 477974003276 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 477974003277 FtsX-like permease family; Region: FtsX; pfam02687 477974003278 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 477974003279 HlyD family secretion protein; Region: HlyD_3; pfam13437 477974003280 Methyltransferase domain; Region: Methyltransf_31; pfam13847 477974003281 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 477974003282 S-adenosylmethionine binding site [chemical binding]; other site 477974003283 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 477974003284 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 477974003285 putative PBP binding regions; other site 477974003286 ABC-ATPase subunit interface; other site 477974003287 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 477974003288 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 477974003289 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 477974003290 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 477974003291 intersubunit interface [polypeptide binding]; other site 477974003292 Uncharacterized conserved protein [Function unknown]; Region: COG2928 477974003293 hypothetical protein; Provisional; Region: PRK08609 477974003294 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 477974003295 active site 477974003296 primer binding site [nucleotide binding]; other site 477974003297 NTP binding site [chemical binding]; other site 477974003298 metal binding triad [ion binding]; metal-binding site 477974003299 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 477974003300 active site 477974003301 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 477974003302 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 477974003303 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 477974003304 FeS/SAM binding site; other site 477974003305 PIN domain; Region: PIN_3; cl17397 477974003306 Acylphosphatase; Region: Acylphosphatase; pfam00708 477974003307 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 477974003308 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 477974003309 Ligand Binding Site [chemical binding]; other site 477974003310 TIGR00269 family protein; Region: TIGR00269 477974003311 Macro domain, 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). Some macro domains recognize poly...; Region: Macro; cl00019 477974003312 ADP-ribose binding site [chemical binding]; other site 477974003313 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 477974003314 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 477974003315 amino acid transporter; Region: 2A0306; TIGR00909 477974003316 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 477974003317 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 477974003318 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 477974003319 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 477974003320 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 477974003321 active site 477974003322 metal binding site [ion binding]; metal-binding site 477974003323 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 477974003324 FMN binding site [chemical binding]; other site 477974003325 dimer interface [polypeptide binding]; other site 477974003326 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 477974003327 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 477974003328 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 477974003329 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 477974003330 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 477974003331 putative active site [active] 477974003332 catalytic triad [active] 477974003333 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 477974003334 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 477974003335 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 477974003336 dimerization interface [polypeptide binding]; other site 477974003337 ATP binding site [chemical binding]; other site 477974003338 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 477974003339 dimerization interface [polypeptide binding]; other site 477974003340 ATP binding site [chemical binding]; other site 477974003341 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 477974003342 GTP-binding protein Der; Reviewed; Region: PRK00093 477974003343 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 477974003344 G1 box; other site 477974003345 GTP/Mg2+ binding site [chemical binding]; other site 477974003346 Switch I region; other site 477974003347 G2 box; other site 477974003348 Switch II region; other site 477974003349 G3 box; other site 477974003350 G4 box; other site 477974003351 G5 box; other site 477974003352 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 477974003353 G1 box; other site 477974003354 GTP/Mg2+ binding site [chemical binding]; other site 477974003355 Switch I region; other site 477974003356 G2 box; other site 477974003357 G3 box; other site 477974003358 Switch II region; other site 477974003359 G4 box; other site 477974003360 G5 box; other site 477974003361 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 477974003362 PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal)...; Region: PDZ_signaling; cd00992 477974003363 Protein of unknown function (DUF512); Region: DUF512; pfam04459 477974003364 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 477974003365 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 477974003366 stage II sporulation protein P; Region: spore_II_P; TIGR02867 477974003367 Protein of unknown function (DUF1614); Region: DUF1614; cl15407 477974003368 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 477974003369 LytB protein; Region: LYTB; cl00507 477974003370 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 477974003371 RNA binding site [nucleotide binding]; other site 477974003372 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 477974003373 RNA binding site [nucleotide binding]; other site 477974003374 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 477974003375 RNA binding site [nucleotide binding]; other site 477974003376 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 477974003377 RNA binding site [nucleotide binding]; other site 477974003378 domain interface; other site 477974003379 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 477974003380 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 477974003381 putative acyl-acceptor binding pocket; other site 477974003382 cytidylate kinase; Provisional; Region: cmk; PRK00023 477974003383 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 477974003384 CMP-binding site; other site 477974003385 The sites determining sugar specificity; other site 477974003386 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 477974003387 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 477974003388 hinge; other site 477974003389 active site 477974003390 prephenate dehydrogenase; Validated; Region: PRK06545 477974003391 prephenate dehydrogenase; Validated; Region: PRK08507 477974003392 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 477974003393 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 477974003394 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 477974003395 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 477974003396 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 477974003397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974003398 homodimer interface [polypeptide binding]; other site 477974003399 catalytic residue [active] 477974003400 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 477974003401 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 477974003402 substrate binding site [chemical binding]; other site 477974003403 active site 477974003404 catalytic residues [active] 477974003405 heterodimer interface [polypeptide binding]; other site 477974003406 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 477974003407 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 477974003408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974003409 catalytic residue [active] 477974003410 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 477974003411 active site 477974003412 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 477974003413 active site 477974003414 ribulose/triose binding site [chemical binding]; other site 477974003415 phosphate binding site [ion binding]; other site 477974003416 substrate (anthranilate) binding pocket [chemical binding]; other site 477974003417 product (indole) binding pocket [chemical binding]; other site 477974003418 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 477974003419 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 477974003420 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 477974003421 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 477974003422 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 477974003423 glutamine binding [chemical binding]; other site 477974003424 catalytic triad [active] 477974003425 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 477974003426 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 477974003427 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 477974003428 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 477974003429 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974003430 Zn2+ binding site [ion binding]; other site 477974003431 Mg2+ binding site [ion binding]; other site 477974003432 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 477974003433 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 477974003434 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974003435 Zn2+ binding site [ion binding]; other site 477974003436 Mg2+ binding site [ion binding]; other site 477974003437 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 477974003438 homotrimer interaction site [polypeptide binding]; other site 477974003439 active site 477974003440 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 477974003441 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 477974003442 RNA binding surface [nucleotide binding]; other site 477974003443 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 477974003444 active site 477974003445 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 477974003446 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 477974003447 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 477974003448 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 477974003449 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 477974003450 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 477974003451 active site 477974003452 HIGH motif; other site 477974003453 dimer interface [polypeptide binding]; other site 477974003454 KMSKS motif; other site 477974003455 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 477974003456 active site 477974003457 Peptidase family M50; Region: Peptidase_M50; pfam02163 477974003458 putative substrate binding region [chemical binding]; other site 477974003459 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 477974003460 DHH family; Region: DHH; pfam01368 477974003461 FOG: CBS domain [General function prediction only]; Region: COG0517 477974003462 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 477974003463 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 477974003464 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 477974003465 active site 477974003466 NTP binding site [chemical binding]; other site 477974003467 metal binding triad [ion binding]; metal-binding site 477974003468 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 477974003469 diaminopimelate decarboxylase; Region: lysA; TIGR01048 477974003470 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 477974003471 active site 477974003472 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 477974003473 substrate binding site [chemical binding]; other site 477974003474 catalytic residues [active] 477974003475 dimer interface [polypeptide binding]; other site 477974003476 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 477974003477 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 477974003478 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974003479 catalytic residue [active] 477974003480 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 477974003481 ABC-2 type transporter; Region: ABC2_membrane; cl17235 477974003482 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 477974003483 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 477974003484 Walker A/P-loop; other site 477974003485 ATP binding site [chemical binding]; other site 477974003486 Q-loop/lid; other site 477974003487 ABC transporter signature motif; other site 477974003488 Walker B; other site 477974003489 D-loop; other site 477974003490 H-loop/switch region; other site 477974003491 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 477974003492 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 477974003493 Walker A motif; other site 477974003494 ATP binding site [chemical binding]; other site 477974003495 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 477974003496 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 477974003497 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 477974003498 metal ion-dependent adhesion site (MIDAS); other site 477974003499 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 477974003500 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 477974003501 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 477974003502 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 477974003503 ABC-2 type transporter; Region: ABC2_membrane; cl17235 477974003504 ABC-2 type transporter; Region: ABC2_membrane; cl17235 477974003505 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 477974003506 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 477974003507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 477974003508 Walker A/P-loop; other site 477974003509 ATP binding site [chemical binding]; other site 477974003510 Q-loop/lid; other site 477974003511 ABC transporter signature motif; other site 477974003512 Walker B; other site 477974003513 D-loop; other site 477974003514 H-loop/switch region; other site 477974003515 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 477974003516 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 477974003517 Walker A/P-loop; other site 477974003518 ATP binding site [chemical binding]; other site 477974003519 Q-loop/lid; other site 477974003520 ABC transporter signature motif; other site 477974003521 Walker B; other site 477974003522 D-loop; other site 477974003523 H-loop/switch region; other site 477974003524 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974003525 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974003526 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 477974003527 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 477974003528 intersubunit interface [polypeptide binding]; other site 477974003529 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 477974003530 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 477974003531 ABC-ATPase subunit interface; other site 477974003532 dimer interface [polypeptide binding]; other site 477974003533 putative PBP binding regions; other site 477974003534 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 477974003535 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 477974003536 intersubunit interface [polypeptide binding]; other site 477974003537 Domain of unknown function (DUF3479); Region: DUF3479; pfam11965 477974003538 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 477974003539 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 477974003540 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 477974003541 SpoVA protein; Region: SpoVA; cl04298 477974003542 stage V sporulation protein AD; Validated; Region: PRK08304 477974003543 stage V sporulation protein AD; Provisional; Region: PRK12404 477974003544 SpoVA protein; Region: SpoVA; cl04298 477974003545 Dodecin; Region: Dodecin; pfam07311 477974003546 sporulation sigma factor SigF; Validated; Region: PRK05572 477974003547 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974003548 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 477974003549 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 477974003550 DNA binding residues [nucleotide binding] 477974003551 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 477974003552 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 477974003553 ATP binding site [chemical binding]; other site 477974003554 Mg2+ binding site [ion binding]; other site 477974003555 G-X-G motif; other site 477974003556 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 477974003557 anti sigma factor interaction site; other site 477974003558 regulatory phosphorylation site [posttranslational modification]; other site 477974003559 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 477974003560 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 477974003561 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 477974003562 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 477974003563 elongation factor G; Reviewed; Region: PRK12740 477974003564 G1 box; other site 477974003565 putative GEF interaction site [polypeptide binding]; other site 477974003566 GTP/Mg2+ binding site [chemical binding]; other site 477974003567 Switch I region; other site 477974003568 G2 box; other site 477974003569 G3 box; other site 477974003570 Switch II region; other site 477974003571 G4 box; other site 477974003572 G5 box; other site 477974003573 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 477974003574 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 477974003575 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 477974003576 stage V sporulation protein B; Region: spore_V_B; TIGR02900 477974003577 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 477974003578 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 477974003579 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 477974003580 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 477974003581 homodecamer interface [polypeptide binding]; other site 477974003582 GTP cyclohydrolase I; Provisional; Region: PLN03044 477974003583 active site 477974003584 putative catalytic site residues [active] 477974003585 zinc binding site [ion binding]; other site 477974003586 GTP-CH-I/GFRP interaction surface; other site 477974003587 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 477974003588 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 477974003589 FeS/SAM binding site; other site 477974003590 Domain of unknown function (DUF366); Region: DUF366; pfam04017 477974003591 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 477974003592 Ligand Binding Site [chemical binding]; other site 477974003593 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 477974003594 active site 477974003595 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 477974003596 TPR motif; other site 477974003597 binding surface 477974003598 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 477974003599 binding surface 477974003600 TPR motif; other site 477974003601 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 477974003602 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 477974003603 binding surface 477974003604 TPR motif; other site 477974003605 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 477974003606 binding surface 477974003607 TPR motif; other site 477974003608 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 477974003609 intersubunit interface [polypeptide binding]; other site 477974003610 active site 477974003611 catalytic residue [active] 477974003612 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 477974003613 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 477974003614 ATP-grasp domain; Region: ATP-grasp_4; cl17255 477974003615 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 477974003616 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 477974003617 active site 477974003618 metal binding site [ion binding]; metal-binding site 477974003619 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 477974003620 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 477974003621 minor groove reading motif; other site 477974003622 helix-hairpin-helix signature motif; other site 477974003623 substrate binding pocket [chemical binding]; other site 477974003624 active site 477974003625 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 477974003626 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 477974003627 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 477974003628 catalytic residues [active] 477974003629 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974003630 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974003631 L-aspartate oxidase; Provisional; Region: PRK06175 477974003632 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 477974003633 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 477974003634 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 477974003635 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 477974003636 Cysteine-rich domain; Region: CCG; pfam02754 477974003637 Cysteine-rich domain; Region: CCG; pfam02754 477974003638 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 477974003639 Fumarase C-terminus; Region: Fumerase_C; pfam05683 477974003640 fumarate hydratase; Provisional; Region: PRK06246 477974003641 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 477974003642 DctM-like transporters; Region: DctM; pfam06808 477974003643 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 477974003644 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 477974003645 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 477974003646 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 477974003647 active site 477974003648 phosphorylation site [posttranslational modification] 477974003649 intermolecular recognition site; other site 477974003650 dimerization interface [polypeptide binding]; other site 477974003651 Leucine rich repeat variant; Region: LRV; pfam01816 477974003652 MoxR-like ATPases [General function prediction only]; Region: COG0714 477974003653 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 477974003654 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 477974003655 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 477974003656 putative active site [active] 477974003657 YdjC motif; other site 477974003658 Mg binding site [ion binding]; other site 477974003659 putative homodimer interface [polypeptide binding]; other site 477974003660 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 477974003661 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 477974003662 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 477974003663 PhoU domain; Region: PhoU; pfam01895 477974003664 PhoU domain; Region: PhoU; pfam01895 477974003665 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 477974003666 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 477974003667 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 477974003668 G1 box; other site 477974003669 GTP/Mg2+ binding site [chemical binding]; other site 477974003670 Switch I region; other site 477974003671 G2 box; other site 477974003672 G3 box; other site 477974003673 Switch II region; other site 477974003674 G4 box; other site 477974003675 G5 box; other site 477974003676 Nucleoside recognition; Region: Gate; pfam07670 477974003677 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 477974003678 Nucleoside recognition; Region: Gate; pfam07670 477974003679 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 477974003680 Stage II sporulation protein; Region: SpoIID; pfam08486 477974003681 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 477974003682 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 477974003683 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 477974003684 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 477974003685 protein-splicing catalytic site; other site 477974003686 thioester formation/cholesterol transfer; other site 477974003687 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 477974003688 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 477974003689 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 477974003690 TSCPD domain; Region: TSCPD; pfam12637 477974003691 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 477974003692 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 477974003693 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 477974003694 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 477974003695 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974003696 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 477974003697 DNA binding residues [nucleotide binding] 477974003698 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 477974003699 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 477974003700 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 477974003701 Part of AAA domain; Region: AAA_19; pfam13245 477974003702 Family description; Region: UvrD_C_2; pfam13538 477974003703 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 477974003704 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 477974003705 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 477974003706 active site 477974003707 metal binding site [ion binding]; metal-binding site 477974003708 DNA binding site [nucleotide binding] 477974003709 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 477974003710 AAA domain; Region: AAA_23; pfam13476 477974003711 Walker A/P-loop; other site 477974003712 ATP binding site [chemical binding]; other site 477974003713 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 477974003714 ABC transporter signature motif; other site 477974003715 Walker B; other site 477974003716 D-loop; other site 477974003717 H-loop/switch region; other site 477974003718 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 477974003719 tartrate dehydrogenase; Region: TTC; TIGR02089 477974003720 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 477974003721 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 477974003722 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 477974003723 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 477974003724 phosphopentomutase; Provisional; Region: PRK05362 477974003725 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 477974003726 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 477974003727 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 477974003728 active site 477974003729 Int/Topo IB signature motif; other site 477974003730 Integral membrane protein DUF95; Region: DUF95; cl00572 477974003731 Protein of unknown function (DUF3866); Region: DUF3866; pfam12982 477974003732 Archaeal protein of unknown function (DUF911); Region: DUF911; pfam06023 477974003733 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A; cl17680 477974003734 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 477974003735 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 477974003736 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 477974003737 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 477974003738 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 477974003739 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 477974003740 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cd09693 477974003741 CRISPR-associated autoregulator DevR family; Region: cas_MJ0381; TIGR01875 477974003742 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 477974003743 Predicted transcriptional regulator [Transcription]; Region: COG2378 477974003744 WYL domain; Region: WYL; pfam13280 477974003745 Uncharacterized conserved protein (DUF2276); Region: DUF2276; pfam10040 477974003746 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 477974003747 Domain of unknown function (DUF814); Region: DUF814; pfam05670 477974003748 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 477974003749 A new structural DNA glycosylase; Region: AlkD_like; cd06561 477974003750 active site 477974003751 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 477974003752 active site 477974003753 dimer interface [polypeptide binding]; other site 477974003754 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 477974003755 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 477974003756 heterodimer interface [polypeptide binding]; other site 477974003757 active site 477974003758 FMN binding site [chemical binding]; other site 477974003759 homodimer interface [polypeptide binding]; other site 477974003760 substrate binding site [chemical binding]; other site 477974003761 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 477974003762 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 477974003763 FAD binding pocket [chemical binding]; other site 477974003764 FAD binding motif [chemical binding]; other site 477974003765 phosphate binding motif [ion binding]; other site 477974003766 beta-alpha-beta structure motif; other site 477974003767 NAD binding pocket [chemical binding]; other site 477974003768 Iron coordination center [ion binding]; other site 477974003769 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 477974003770 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 477974003771 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 477974003772 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 477974003773 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 477974003774 ATP-grasp domain; Region: ATP-grasp_4; cl17255 477974003775 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 477974003776 IMP binding site; other site 477974003777 dimer interface [polypeptide binding]; other site 477974003778 interdomain contacts; other site 477974003779 partial ornithine binding site; other site 477974003780 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 477974003781 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 477974003782 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 477974003783 catalytic site [active] 477974003784 subunit interface [polypeptide binding]; other site 477974003785 dihydroorotase; Validated; Region: pyrC; PRK09357 477974003786 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 477974003787 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 477974003788 active site 477974003789 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 477974003790 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 477974003791 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 477974003792 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 477974003793 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 477974003794 active site 477974003795 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 477974003796 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 477974003797 Major Facilitator Superfamily; Region: MFS_1; pfam07690 477974003798 putative substrate translocation pore; other site 477974003799 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; pfam02679 477974003800 Protein of unknown function (DUF441); Region: DUF441; cl01041 477974003801 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 477974003802 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 477974003803 dimer interface [polypeptide binding]; other site 477974003804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974003805 catalytic residue [active] 477974003806 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 477974003807 homotrimer interface [polypeptide binding]; other site 477974003808 Walker A motif; other site 477974003809 GTP binding site [chemical binding]; other site 477974003810 Walker B motif; other site 477974003811 cobalamin synthase; Reviewed; Region: cobS; PRK00235 477974003812 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 477974003813 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 477974003814 putative dimer interface [polypeptide binding]; other site 477974003815 active site pocket [active] 477974003816 putative cataytic base [active] 477974003817 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 477974003818 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 477974003819 Walker A/P-loop; other site 477974003820 ATP binding site [chemical binding]; other site 477974003821 Q-loop/lid; other site 477974003822 ABC transporter signature motif; other site 477974003823 Walker B; other site 477974003824 D-loop; other site 477974003825 H-loop/switch region; other site 477974003826 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 477974003827 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 477974003828 ABC-ATPase subunit interface; other site 477974003829 dimer interface [polypeptide binding]; other site 477974003830 putative PBP binding regions; other site 477974003831 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 477974003832 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 477974003833 cobalamin binding residues [chemical binding]; other site 477974003834 putative BtuC binding residues; other site 477974003835 dimer interface [polypeptide binding]; other site 477974003836 AAA domain; Region: AAA_28; pfam13521 477974003837 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 477974003838 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 477974003839 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 477974003840 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 477974003841 active site 477974003842 glycogen synthase; Provisional; Region: glgA; PRK00654 477974003843 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 477974003844 ADP-binding pocket [chemical binding]; other site 477974003845 homodimer interface [polypeptide binding]; other site 477974003846 ADP-glucose phosphorylase; Region: PLN02643 477974003847 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 477974003848 nucleotide binding site/active site [active] 477974003849 HIT family signature motif; other site 477974003850 catalytic residue [active] 477974003851 septum formation inhibitor; Reviewed; Region: minC; PRK00513 477974003852 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 477974003853 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 477974003854 dimer interface [polypeptide binding]; other site 477974003855 active site 477974003856 ADP-ribose binding site [chemical binding]; other site 477974003857 nudix motif; other site 477974003858 metal binding site [ion binding]; metal-binding site 477974003859 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 477974003860 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 477974003861 substrate-cofactor binding pocket; other site 477974003862 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974003863 catalytic residue [active] 477974003864 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 477974003865 AAA domain; Region: AAA_26; pfam13500 477974003866 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 477974003867 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 477974003868 inhibitor-cofactor binding pocket; inhibition site 477974003869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974003870 catalytic residue [active] 477974003871 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 477974003872 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 477974003873 S-adenosylmethionine binding site [chemical binding]; other site 477974003874 biotin synthase; Region: bioB; TIGR00433 477974003875 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 477974003876 FeS/SAM binding site; other site 477974003877 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 477974003878 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 477974003879 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 477974003880 putative dimer interface [polypeptide binding]; other site 477974003881 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 477974003882 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 477974003883 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 477974003884 catalytic loop [active] 477974003885 iron binding site [ion binding]; other site 477974003886 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 477974003887 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 477974003888 4Fe-4S binding domain; Region: Fer4; pfam00037 477974003889 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 477974003890 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 477974003891 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 477974003892 dimer interface [polypeptide binding]; other site 477974003893 [2Fe-2S] cluster binding site [ion binding]; other site 477974003894 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 477974003895 SLBB domain; Region: SLBB; pfam10531 477974003896 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 477974003897 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 477974003898 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 477974003899 putative dimer interface [polypeptide binding]; other site 477974003900 [2Fe-2S] cluster binding site [ion binding]; other site 477974003901 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 477974003902 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 477974003903 inhibitor-cofactor binding pocket; inhibition site 477974003904 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974003905 catalytic residue [active] 477974003906 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 477974003907 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 477974003908 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 477974003909 putative DNA binding site [nucleotide binding]; other site 477974003910 putative Zn2+ binding site [ion binding]; other site 477974003911 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 477974003912 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 477974003913 FeS/SAM binding site; other site 477974003914 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 477974003915 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 477974003916 dimer interface [polypeptide binding]; other site 477974003917 active site 477974003918 Schiff base residues; other site 477974003919 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 477974003920 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 477974003921 FeS/SAM binding site; other site 477974003922 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 477974003923 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 477974003924 active site 477974003925 SAM binding site [chemical binding]; other site 477974003926 homodimer interface [polypeptide binding]; other site 477974003927 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 477974003928 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 477974003929 active site 477974003930 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 477974003931 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 477974003932 domain interfaces; other site 477974003933 active site 477974003934 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 477974003935 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 477974003936 tRNA; other site 477974003937 putative tRNA binding site [nucleotide binding]; other site 477974003938 putative NADP binding site [chemical binding]; other site 477974003939 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 477974003940 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 477974003941 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 477974003942 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 477974003943 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 477974003944 substrate binding pocket [chemical binding]; other site 477974003945 chain length determination region; other site 477974003946 substrate-Mg2+ binding site; other site 477974003947 catalytic residues [active] 477974003948 aspartate-rich region 1; other site 477974003949 active site lid residues [active] 477974003950 aspartate-rich region 2; other site 477974003951 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 477974003952 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 477974003953 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 477974003954 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 477974003955 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 477974003956 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 477974003957 Protein export membrane protein; Region: SecD_SecF; pfam02355 477974003958 protein-export membrane protein SecD; Region: secD; TIGR01129 477974003959 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 477974003960 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974003961 Zn2+ binding site [ion binding]; other site 477974003962 Mg2+ binding site [ion binding]; other site 477974003963 Preprotein translocase subunit; Region: YajC; pfam02699 477974003964 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 477974003965 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 477974003966 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 477974003967 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 477974003968 Ligand Binding Site [chemical binding]; other site 477974003969 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 477974003970 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 477974003971 Walker A motif; other site 477974003972 ATP binding site [chemical binding]; other site 477974003973 Walker B motif; other site 477974003974 arginine finger; other site 477974003975 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 477974003976 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 477974003977 RuvA N terminal domain; Region: RuvA_N; pfam01330 477974003978 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 477974003979 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 477974003980 active site 477974003981 putative DNA-binding cleft [nucleotide binding]; other site 477974003982 dimer interface [polypeptide binding]; other site 477974003983 NAD synthetase; Provisional; Region: PRK13980 477974003984 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 477974003985 homodimer interface [polypeptide binding]; other site 477974003986 NAD binding pocket [chemical binding]; other site 477974003987 ATP binding pocket [chemical binding]; other site 477974003988 Mg binding site [ion binding]; other site 477974003989 active-site loop [active] 477974003990 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 477974003991 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 477974003992 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 477974003993 active site 477974003994 HIGH motif; other site 477974003995 dimer interface [polypeptide binding]; other site 477974003996 KMSKS motif; other site 477974003997 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 477974003998 RNA binding surface [nucleotide binding]; other site 477974003999 Transglycosylase; Region: Transgly; pfam00912 477974004000 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 477974004001 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 477974004002 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 477974004003 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 477974004004 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 477974004005 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 477974004006 Walker A/P-loop; other site 477974004007 ATP binding site [chemical binding]; other site 477974004008 Q-loop/lid; other site 477974004009 ABC transporter signature motif; other site 477974004010 Walker B; other site 477974004011 D-loop; other site 477974004012 H-loop/switch region; other site 477974004013 Protein of unknown function DUF89; Region: DUF89; cl15397 477974004014 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 477974004015 MutS domain III; Region: MutS_III; pfam05192 477974004016 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 477974004017 Walker A/P-loop; other site 477974004018 ATP binding site [chemical binding]; other site 477974004019 Q-loop/lid; other site 477974004020 ABC transporter signature motif; other site 477974004021 Walker B; other site 477974004022 D-loop; other site 477974004023 H-loop/switch region; other site 477974004024 Smr domain; Region: Smr; pfam01713 477974004025 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 477974004026 Peptidase family U32; Region: Peptidase_U32; pfam01136 477974004027 Collagenase; Region: DUF3656; pfam12392 477974004028 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 477974004029 Peptidase family U32; Region: Peptidase_U32; pfam01136 477974004030 Uncharacterized conserved protein [Function unknown]; Region: COG0327 477974004031 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 477974004032 Cell division protein ZapA; Region: ZapA; cl01146 477974004033 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 477974004034 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 477974004035 putative tRNA-binding site [nucleotide binding]; other site 477974004036 B3/4 domain; Region: B3_4; pfam03483 477974004037 tRNA synthetase B5 domain; Region: B5; smart00874 477974004038 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 477974004039 dimer interface [polypeptide binding]; other site 477974004040 motif 1; other site 477974004041 motif 3; other site 477974004042 motif 2; other site 477974004043 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 477974004044 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 477974004045 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 477974004046 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 477974004047 dimer interface [polypeptide binding]; other site 477974004048 motif 1; other site 477974004049 active site 477974004050 motif 2; other site 477974004051 motif 3; other site 477974004052 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 477974004053 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 477974004054 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 477974004055 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 477974004056 TrkA-N domain; Region: TrkA_N; pfam02254 477974004057 TrkA-C domain; Region: TrkA_C; pfam02080 477974004058 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 477974004059 23S rRNA binding site [nucleotide binding]; other site 477974004060 L21 binding site [polypeptide binding]; other site 477974004061 L13 binding site [polypeptide binding]; other site 477974004062 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 477974004063 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 477974004064 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 477974004065 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 477974004066 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 477974004067 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 477974004068 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 477974004069 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 477974004070 active site 477974004071 dimer interface [polypeptide binding]; other site 477974004072 motif 1; other site 477974004073 motif 2; other site 477974004074 motif 3; other site 477974004075 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 477974004076 anticodon binding site; other site 477974004077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 477974004078 YtxC-like family; Region: YtxC; cl08500 477974004079 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 477974004080 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 477974004081 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 477974004082 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 477974004083 Walker A/P-loop; other site 477974004084 ATP binding site [chemical binding]; other site 477974004085 Q-loop/lid; other site 477974004086 ABC transporter signature motif; other site 477974004087 Walker B; other site 477974004088 D-loop; other site 477974004089 H-loop/switch region; other site 477974004090 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 477974004091 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 477974004092 Walker A/P-loop; other site 477974004093 ATP binding site [chemical binding]; other site 477974004094 Q-loop/lid; other site 477974004095 ABC transporter signature motif; other site 477974004096 Walker B; other site 477974004097 D-loop; other site 477974004098 H-loop/switch region; other site 477974004099 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 477974004100 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 477974004101 TM-ABC transporter signature motif; other site 477974004102 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 477974004103 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 477974004104 TM-ABC transporter signature motif; other site 477974004105 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 477974004106 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 477974004107 putative ligand binding site [chemical binding]; other site 477974004108 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 477974004109 AAA domain; Region: AAA_30; pfam13604 477974004110 Family description; Region: UvrD_C_2; pfam13538 477974004111 Protein of unknown function (DUF1847); Region: DUF1847; cl02037 477974004112 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 477974004113 active site 477974004114 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 477974004115 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 477974004116 ATP binding site [chemical binding]; other site 477974004117 Mg++ binding site [ion binding]; other site 477974004118 motif III; other site 477974004119 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 477974004120 nucleotide binding region [chemical binding]; other site 477974004121 ATP-binding site [chemical binding]; other site 477974004122 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 477974004123 RNA binding site [nucleotide binding]; other site 477974004124 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 477974004125 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 477974004126 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 477974004127 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 477974004128 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 477974004129 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 477974004130 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 477974004131 DNA polymerase I; Provisional; Region: PRK05755 477974004132 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 477974004133 active site 477974004134 metal binding site 1 [ion binding]; metal-binding site 477974004135 putative 5' ssDNA interaction site; other site 477974004136 metal binding site 3; metal-binding site 477974004137 metal binding site 2 [ion binding]; metal-binding site 477974004138 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 477974004139 putative DNA binding site [nucleotide binding]; other site 477974004140 putative metal binding site [ion binding]; other site 477974004141 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 477974004142 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 477974004143 active site 477974004144 DNA binding site [nucleotide binding] 477974004145 catalytic site [active] 477974004146 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 477974004147 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 477974004148 DNA binding site [nucleotide binding] 477974004149 catalytic residue [active] 477974004150 H2TH interface [polypeptide binding]; other site 477974004151 putative catalytic residues [active] 477974004152 turnover-facilitating residue; other site 477974004153 intercalation triad [nucleotide binding]; other site 477974004154 8OG recognition residue [nucleotide binding]; other site 477974004155 putative reading head residues; other site 477974004156 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 477974004157 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 477974004158 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 477974004159 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 477974004160 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 477974004161 CoA-binding site [chemical binding]; other site 477974004162 ATP-binding [chemical binding]; other site 477974004163 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 477974004164 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 477974004165 N-acetyl-D-glucosamine binding site [chemical binding]; other site 477974004166 catalytic residue [active] 477974004167 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 477974004168 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 477974004169 active site 477974004170 HIGH motif; other site 477974004171 nucleotide binding site [chemical binding]; other site 477974004172 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 477974004173 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 477974004174 active site 477974004175 KMSKS motif; other site 477974004176 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 477974004177 tRNA binding surface [nucleotide binding]; other site 477974004178 anticodon binding site; other site 477974004179 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 477974004180 DivIVA domain; Region: DivI1A_domain; TIGR03544 477974004181 DivIVA protein; Region: DivIVA; pfam05103 477974004182 YGGT family; Region: YGGT; pfam02325 477974004183 pyrroline-5-carboxylate reductase; Region: PLN02688 477974004184 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 477974004185 Protein of unknown function (DUF552); Region: DUF552; pfam04472 477974004186 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 477974004187 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 477974004188 catalytic residue [active] 477974004189 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 477974004190 PhoU domain; Region: PhoU; pfam01895 477974004191 PhoU domain; Region: PhoU; pfam01895 477974004192 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 477974004193 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 477974004194 Walker A/P-loop; other site 477974004195 ATP binding site [chemical binding]; other site 477974004196 Q-loop/lid; other site 477974004197 ABC transporter signature motif; other site 477974004198 Walker B; other site 477974004199 D-loop; other site 477974004200 H-loop/switch region; other site 477974004201 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 477974004202 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 477974004203 dimerization interface [polypeptide binding]; other site 477974004204 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 477974004205 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 477974004206 putative active site [active] 477974004207 heme pocket [chemical binding]; other site 477974004208 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 477974004209 dimer interface [polypeptide binding]; other site 477974004210 phosphorylation site [posttranslational modification] 477974004211 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 477974004212 ATP binding site [chemical binding]; other site 477974004213 Mg2+ binding site [ion binding]; other site 477974004214 G-X-G motif; other site 477974004215 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 477974004216 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 477974004217 active site 477974004218 phosphorylation site [posttranslational modification] 477974004219 intermolecular recognition site; other site 477974004220 dimerization interface [polypeptide binding]; other site 477974004221 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 477974004222 DNA binding site [nucleotide binding] 477974004223 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 477974004224 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 477974004225 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 477974004226 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 477974004227 Beta-Casp domain; Region: Beta-Casp; smart01027 477974004228 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 477974004229 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 477974004230 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 477974004231 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 477974004232 sporulation sigma factor SigG; Reviewed; Region: PRK08215 477974004233 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974004234 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 477974004235 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 477974004236 DNA binding residues [nucleotide binding] 477974004237 sporulation sigma factor SigE; Reviewed; Region: PRK08301 477974004238 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974004239 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 477974004240 DNA binding residues [nucleotide binding] 477974004241 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 477974004242 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 477974004243 cell division protein FtsZ; Validated; Region: PRK09330 477974004244 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 477974004245 nucleotide binding site [chemical binding]; other site 477974004246 SulA interaction site; other site 477974004247 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 477974004248 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 477974004249 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 477974004250 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 477974004251 Cell division protein FtsQ; Region: FtsQ; pfam03799 477974004252 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 477974004253 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 477974004254 hinge; other site 477974004255 active site 477974004256 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 477974004257 FAD binding domain; Region: FAD_binding_4; pfam01565 477974004258 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 477974004259 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 477974004260 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 477974004261 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 477974004262 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 477974004263 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 477974004264 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 477974004265 active site 477974004266 homodimer interface [polypeptide binding]; other site 477974004267 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 477974004268 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 477974004269 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 477974004270 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 477974004271 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 477974004272 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 477974004273 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 477974004274 Mg++ binding site [ion binding]; other site 477974004275 putative catalytic motif [active] 477974004276 putative substrate binding site [chemical binding]; other site 477974004277 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 477974004278 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 477974004279 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 477974004280 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 477974004281 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 477974004282 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 477974004283 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 477974004284 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 477974004285 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 477974004286 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 477974004287 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 477974004288 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 477974004289 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 477974004290 Septum formation initiator; Region: DivIC; pfam04977 477974004291 MraW methylase family; Region: Methyltransf_5; cl17771 477974004292 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 477974004293 cell division protein MraZ; Reviewed; Region: PRK00326 477974004294 MraZ protein; Region: MraZ; pfam02381 477974004295 MraZ protein; Region: MraZ; pfam02381 477974004296 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 477974004297 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974004298 histidinol-phosphatase; Provisional; Region: PRK07328 477974004299 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 477974004300 active site 477974004301 dimer interface [polypeptide binding]; other site 477974004302 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 477974004303 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 477974004304 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 477974004305 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 477974004306 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 477974004307 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 477974004308 homodimer interface [polypeptide binding]; other site 477974004309 oligonucleotide binding site [chemical binding]; other site 477974004310 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 477974004311 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 477974004312 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 477974004313 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 477974004314 B12 binding site [chemical binding]; other site 477974004315 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 477974004316 FeS/SAM binding site; other site 477974004317 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 477974004318 Peptidase family M50; Region: Peptidase_M50; pfam02163 477974004319 active site 477974004320 putative substrate binding region [chemical binding]; other site 477974004321 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 477974004322 Peptidase family M23; Region: Peptidase_M23; pfam01551 477974004323 Methyltransferase domain; Region: Methyltransf_23; pfam13489 477974004324 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 477974004325 S-adenosylmethionine binding site [chemical binding]; other site 477974004326 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 477974004327 Septum formation topological specificity factor MinE; Region: MinE; cl00538 477974004328 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 477974004329 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 477974004330 Switch I; other site 477974004331 Switch II; other site 477974004332 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 477974004333 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 477974004334 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 477974004335 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 477974004336 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 477974004337 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 477974004338 rod shape-determining protein MreC; Provisional; Region: PRK13922 477974004339 rod shape-determining protein MreC; Region: MreC; pfam04085 477974004340 rod shape-determining protein MreB; Provisional; Region: PRK13927 477974004341 MreB and similar proteins; Region: MreB_like; cd10225 477974004342 nucleotide binding site [chemical binding]; other site 477974004343 Mg binding site [ion binding]; other site 477974004344 putative protofilament interaction site [polypeptide binding]; other site 477974004345 RodZ interaction site [polypeptide binding]; other site 477974004346 hypothetical protein; Reviewed; Region: PRK00024 477974004347 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 477974004348 helix-hairpin-helix signature motif; other site 477974004349 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 477974004350 MPN+ (JAMM) motif; other site 477974004351 Zinc-binding site [ion binding]; other site 477974004352 Maf-like protein; Reviewed; Region: PRK00078 477974004353 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 477974004354 active site 477974004355 dimer interface [polypeptide binding]; other site 477974004356 This group of proteins belong to a large family of YjgF/YER057c/UK114-like 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...; Region: YjgF_YER057c_UK114_like_1; cd02199 477974004357 homotrimer interaction site [polypeptide binding]; other site 477974004358 putative active site [active] 477974004359 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 477974004360 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 477974004361 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 477974004362 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 477974004363 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 477974004364 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 477974004365 HIGH motif; other site 477974004366 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 477974004367 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 477974004368 active site 477974004369 KMSKS motif; other site 477974004370 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 477974004371 tRNA binding surface [nucleotide binding]; other site 477974004372 anticodon binding site; other site 477974004373 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 477974004374 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 477974004375 NMT1/THI5 like; Region: NMT1; pfam09084 477974004376 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 477974004377 Found in ATP-dependent protease La (LON); Region: LON; smart00464 477974004378 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 477974004379 Walker A motif; other site 477974004380 ATP binding site [chemical binding]; other site 477974004381 Walker B motif; other site 477974004382 arginine finger; other site 477974004383 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 477974004384 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 477974004385 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 477974004386 Walker A motif; other site 477974004387 ATP binding site [chemical binding]; other site 477974004388 Walker B motif; other site 477974004389 arginine finger; other site 477974004390 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 477974004391 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 477974004392 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 477974004393 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 477974004394 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 477974004395 Walker A motif; other site 477974004396 ATP binding site [chemical binding]; other site 477974004397 Walker B motif; other site 477974004398 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 477974004399 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 477974004400 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 477974004401 oligomer interface [polypeptide binding]; other site 477974004402 active site residues [active] 477974004403 trigger factor; Provisional; Region: tig; PRK01490 477974004404 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 477974004405 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 477974004406 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 477974004407 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 477974004408 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 477974004409 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 477974004410 ligand binding site [chemical binding]; other site 477974004411 flexible hinge region; other site 477974004412 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 477974004413 putative switch regulator; other site 477974004414 non-specific DNA interactions [nucleotide binding]; other site 477974004415 DNA binding site [nucleotide binding] 477974004416 sequence specific DNA binding site [nucleotide binding]; other site 477974004417 putative cAMP binding site [chemical binding]; other site 477974004418 Gas vesicle protein; Region: Gas_vesicle; pfam00741 477974004419 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 477974004420 Gas vesicle protein K; Region: GvpK; pfam05121 477974004421 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 477974004422 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 477974004423 putative dimer interface [polypeptide binding]; other site 477974004424 Gas vesicle protein; Region: Gas_vesicle; pfam00741 477974004425 Gas vesicle protein G; Region: GvpG; pfam05120 477974004426 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 477974004427 AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243 477974004428 Cell division protein 48 (CDC48), N-terminal domain; Region: CDC48_N; pfam02359 477974004429 Cell division protein 48 (CDC48), domain 2; Region: CDC48_2; pfam02933 477974004430 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 477974004431 Walker A motif; other site 477974004432 ATP binding site [chemical binding]; other site 477974004433 Walker B motif; other site 477974004434 arginine finger; other site 477974004435 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 477974004436 Walker A motif; other site 477974004437 ATP binding site [chemical binding]; other site 477974004438 Walker B motif; other site 477974004439 arginine finger; other site 477974004440 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 477974004441 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 477974004442 putative dimer interface [polypeptide binding]; other site 477974004443 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 477974004444 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 477974004445 Walker A motif; other site 477974004446 ATP binding site [chemical binding]; other site 477974004447 Walker B motif; other site 477974004448 arginine finger; other site 477974004449 Gas vesicle synthesis protein GvpO; Region: GvpO; pfam05800 477974004450 gas vesicle synthesis protein GvpA; Provisional; Region: PRK09371 477974004451 gas vesicle synthesis protein GvpA; Provisional; Region: PRK09371 477974004452 Helix-turn-helix domain; Region: HTH_28; pfam13518 477974004453 Winged helix-turn helix; Region: HTH_29; pfam13551 477974004454 Integrase core domain; Region: rve; pfam00665 477974004455 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974004456 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974004457 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974004458 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974004459 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 477974004460 active site 477974004461 dimerization interface [polypeptide binding]; other site 477974004462 ribonuclease PH; Reviewed; Region: rph; PRK00173 477974004463 Ribonuclease PH; Region: RNase_PH_bact; cd11362 477974004464 hexamer interface [polypeptide binding]; other site 477974004465 active site 477974004466 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 477974004467 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 477974004468 glutamate racemase; Provisional; Region: PRK00865 477974004469 Bacterial SH3 domain homologues; Region: SH3b; smart00287 477974004470 Bacterial SH3 domain; Region: SH3_3; pfam08239 477974004471 Bacterial SH3 domain; Region: SH3_3; pfam08239 477974004472 Bacterial SH3 domain; Region: SH3_3; pfam08239 477974004473 Bacterial SH3 domain; Region: SH3_3; cl17532 477974004474 AMIN domain; Region: AMIN; pfam11741 477974004475 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 477974004476 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 477974004477 active site 477974004478 metal binding site [ion binding]; metal-binding site 477974004479 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 477974004480 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 477974004481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 477974004482 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 477974004483 EVE domain; Region: EVE; cl00728 477974004484 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974004485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 477974004486 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 477974004487 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 477974004488 dimer interface [polypeptide binding]; other site 477974004489 NAD binding site [chemical binding]; other site 477974004490 substrate binding site [chemical binding]; other site 477974004491 tetramer (dimer of dimers) interface [polypeptide binding]; other site 477974004492 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974004493 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 477974004494 Fe-S cluster binding site [ion binding]; other site 477974004495 active site 477974004496 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 477974004497 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 477974004498 active site 477974004499 HIGH motif; other site 477974004500 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 477974004501 active site 477974004502 KMSKS motif; other site 477974004503 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 477974004504 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 477974004505 DNA binding site [nucleotide binding] 477974004506 active site 477974004507 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 477974004508 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 477974004509 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974004510 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 477974004511 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 477974004512 selenophosphate synthetase; Provisional; Region: PRK00943 477974004513 dimerization interface [polypeptide binding]; other site 477974004514 putative ATP binding site [chemical binding]; other site 477974004515 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 477974004516 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 477974004517 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 477974004518 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 477974004519 switch II; other site 477974004520 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 477974004521 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 477974004522 Walker A/P-loop; other site 477974004523 ATP binding site [chemical binding]; other site 477974004524 Q-loop/lid; other site 477974004525 ABC transporter signature motif; other site 477974004526 Walker B; other site 477974004527 D-loop; other site 477974004528 H-loop/switch region; other site 477974004529 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 477974004530 PBP superfamily domain; Region: PBP_like_2; pfam12849 477974004531 AAA domain; Region: AAA_32; pfam13654 477974004532 ATP-dependent protease Lon; Provisional; Region: PRK13765 477974004533 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 477974004534 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 477974004535 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 477974004536 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 477974004537 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 477974004538 motif II; other site 477974004539 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 477974004540 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 477974004541 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 477974004542 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 477974004543 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 477974004544 ABC-ATPase subunit interface; other site 477974004545 dimer interface [polypeptide binding]; other site 477974004546 putative PBP binding regions; other site 477974004547 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 477974004548 catalytic loop [active] 477974004549 iron binding site [ion binding]; other site 477974004550 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 477974004551 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 477974004552 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 477974004553 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 477974004554 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 477974004555 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 477974004556 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 477974004557 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 477974004558 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 477974004559 G1 box; other site 477974004560 GTP/Mg2+ binding site [chemical binding]; other site 477974004561 G2 box; other site 477974004562 Switch I region; other site 477974004563 G3 box; other site 477974004564 Switch II region; other site 477974004565 G4 box; other site 477974004566 G5 box; other site 477974004567 Nucleoside recognition; Region: Gate; pfam07670 477974004568 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 477974004569 Nucleoside recognition; Region: Gate; pfam07670 477974004570 FeoA domain; Region: FeoA; pfam04023 477974004571 YibE/F-like protein; Region: YibE_F; pfam07907 477974004572 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 477974004573 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 477974004574 Transcriptional regulator; Region: Rrf2; cl17282 477974004575 Rrf2 family protein; Region: rrf2_super; TIGR00738 477974004576 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 477974004577 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 477974004578 G1 box; other site 477974004579 G1 box; other site 477974004580 GTP/Mg2+ binding site [chemical binding]; other site 477974004581 GTP/Mg2+ binding site [chemical binding]; other site 477974004582 G2 box; other site 477974004583 Switch I region; other site 477974004584 G3 box; other site 477974004585 Switch II region; other site 477974004586 G4 box; other site 477974004587 G5 box; other site 477974004588 TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it...; Region: TGS_DRG_C; cd01666 477974004589 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 477974004590 putative CheA interaction surface; other site 477974004591 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 477974004592 dimerization interface [polypeptide binding]; other site 477974004593 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 477974004594 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 477974004595 dimer interface [polypeptide binding]; other site 477974004596 putative CheW interface [polypeptide binding]; other site 477974004597 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 477974004598 HEAT-like repeat; Region: HEAT_EZ; pfam13513 477974004599 protein binding surface [polypeptide binding]; other site 477974004600 phosphoenolpyruvate carboxykinase; Provisional; Region: PRK09344 477974004601 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 477974004602 active site 477974004603 metal-binding site [ion binding] 477974004604 nucleotide-binding site [chemical binding]; other site 477974004605 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 477974004606 D-galactonate transporter; Region: 2A0114; TIGR00893 477974004607 putative substrate translocation pore; other site 477974004608 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 477974004609 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974004610 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 477974004611 active site 477974004612 catalytic site [active] 477974004613 substrate binding site [chemical binding]; other site 477974004614 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 477974004615 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 477974004616 ligand binding site [chemical binding]; other site 477974004617 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 477974004618 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 477974004619 metal binding triad; other site 477974004620 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 477974004621 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 477974004622 Na binding site [ion binding]; other site 477974004623 Protein of unknown function, DUF485; Region: DUF485; pfam04341 477974004624 acetyl-CoA synthetase; Provisional; Region: PRK00174 477974004625 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 477974004626 active site 477974004627 CoA binding site [chemical binding]; other site 477974004628 acyl-activating enzyme (AAE) consensus motif; other site 477974004629 AMP binding site [chemical binding]; other site 477974004630 acetate binding site [chemical binding]; other site 477974004631 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 477974004632 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 477974004633 acyl-activating enzyme (AAE) consensus motif; other site 477974004634 AMP binding site [chemical binding]; other site 477974004635 active site 477974004636 CoA binding site [chemical binding]; other site 477974004637 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 477974004638 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 477974004639 acyl-activating enzyme (AAE) consensus motif; other site 477974004640 AMP binding site [chemical binding]; other site 477974004641 active site 477974004642 CoA binding site [chemical binding]; other site 477974004643 ACT domain-containing protein [General function prediction only]; Region: COG4747 477974004644 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 477974004645 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 477974004646 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 477974004647 non-heme iron binding site [ion binding]; other site 477974004648 dimer interface [polypeptide binding]; other site 477974004649 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 477974004650 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 477974004651 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 477974004652 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 477974004653 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 477974004654 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 477974004655 molybdopterin cofactor binding site; other site 477974004656 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 477974004657 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 477974004658 molybdopterin cofactor binding site; other site 477974004659 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 477974004660 Probable transposase; Region: OrfB_IS605; pfam01385 477974004661 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 477974004662 Transposase IS200 like; Region: Y1_Tnp; pfam01797 477974004663 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 477974004664 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 477974004665 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 477974004666 CoA binding domain; Region: CoA_binding; smart00881 477974004667 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 477974004668 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 477974004669 substrate binding site [chemical binding]; other site 477974004670 hexamer interface [polypeptide binding]; other site 477974004671 metal binding site [ion binding]; metal-binding site 477974004672 GTPase RsgA; Reviewed; Region: PRK00098 477974004673 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 477974004674 RNA binding site [nucleotide binding]; other site 477974004675 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 477974004676 GTPase/Zn-binding domain interface [polypeptide binding]; other site 477974004677 GTP/Mg2+ binding site [chemical binding]; other site 477974004678 G4 box; other site 477974004679 G5 box; other site 477974004680 G1 box; other site 477974004681 Switch I region; other site 477974004682 G2 box; other site 477974004683 G3 box; other site 477974004684 Switch II region; other site 477974004685 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 477974004686 Catalytic domain of Protein Kinases; Region: PKc; cd00180 477974004687 active site 477974004688 ATP binding site [chemical binding]; other site 477974004689 substrate binding site [chemical binding]; other site 477974004690 activation loop (A-loop); other site 477974004691 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 477974004692 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 477974004693 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 477974004694 Protein phosphatase 2C; Region: PP2C; pfam00481 477974004695 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 477974004696 active site 477974004697 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 477974004698 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 477974004699 FeS/SAM binding site; other site 477974004700 16S rRNA methyltransferase B; Provisional; Region: PRK14902 477974004701 NusB family; Region: NusB; pfam01029 477974004702 putative RNA binding site [nucleotide binding]; other site 477974004703 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 477974004704 S-adenosylmethionine binding site [chemical binding]; other site 477974004705 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 477974004706 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 477974004707 putative active site [active] 477974004708 substrate binding site [chemical binding]; other site 477974004709 putative cosubstrate binding site; other site 477974004710 catalytic site [active] 477974004711 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 477974004712 substrate binding site [chemical binding]; other site 477974004713 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 477974004714 active site 477974004715 catalytic residues [active] 477974004716 metal binding site [ion binding]; metal-binding site 477974004717 primosome assembly protein PriA; Validated; Region: PRK05580 477974004718 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 477974004719 ATP binding site [chemical binding]; other site 477974004720 putative Mg++ binding site [ion binding]; other site 477974004721 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 477974004722 nucleotide binding region [chemical binding]; other site 477974004723 ATP-binding site [chemical binding]; other site 477974004724 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 477974004725 Flavoprotein; Region: Flavoprotein; pfam02441 477974004726 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 477974004727 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 477974004728 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 477974004729 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 477974004730 catalytic site [active] 477974004731 G-X2-G-X-G-K; other site 477974004732 hypothetical protein; Provisional; Region: PRK04323 477974004733 hypothetical protein; Provisional; Region: PRK11820 477974004734 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 477974004735 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 477974004736 aspartate aminotransferase; Provisional; Region: PRK05764 477974004737 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 477974004738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974004739 homodimer interface [polypeptide binding]; other site 477974004740 catalytic residue [active] 477974004741 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 477974004742 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 477974004743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974004744 homodimer interface [polypeptide binding]; other site 477974004745 catalytic residue [active] 477974004746 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 477974004747 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 477974004748 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 477974004749 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 477974004750 peptidase T-like protein; Region: PepT-like; TIGR01883 477974004751 metal binding site [ion binding]; metal-binding site 477974004752 putative dimer interface [polypeptide binding]; other site 477974004753 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 477974004754 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 477974004755 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 477974004756 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 477974004757 TPP-binding site [chemical binding]; other site 477974004758 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 477974004759 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 477974004760 dimer interface [polypeptide binding]; other site 477974004761 PYR/PP interface [polypeptide binding]; other site 477974004762 TPP binding site [chemical binding]; other site 477974004763 substrate binding site [chemical binding]; other site 477974004764 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 477974004765 AAA domain; Region: AAA_31; pfam13614 477974004766 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 477974004767 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 477974004768 Ligand binding site; other site 477974004769 Putative Catalytic site; other site 477974004770 DXD motif; other site 477974004771 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 477974004772 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 477974004773 Thiamine pyrophosphokinase; Region: TPK; cl08415 477974004774 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 477974004775 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 477974004776 active site 477974004777 phosphorylation site [posttranslational modification] 477974004778 intermolecular recognition site; other site 477974004779 dimerization interface [polypeptide binding]; other site 477974004780 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 477974004781 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 477974004782 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 477974004783 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 477974004784 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 477974004785 nucleotide binding pocket [chemical binding]; other site 477974004786 K-X-D-G motif; other site 477974004787 catalytic site [active] 477974004788 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 477974004789 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 477974004790 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 477974004791 helix-hairpin-helix signature motif; other site 477974004792 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 477974004793 Dimer interface [polypeptide binding]; other site 477974004794 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 477974004795 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 477974004796 Part of AAA domain; Region: AAA_19; pfam13245 477974004797 Family description; Region: UvrD_C_2; pfam13538 477974004798 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 477974004799 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 477974004800 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 477974004801 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 477974004802 metal binding site [ion binding]; metal-binding site 477974004803 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 477974004804 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 477974004805 substrate binding site [chemical binding]; other site 477974004806 glutamase interaction surface [polypeptide binding]; other site 477974004807 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 477974004808 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 477974004809 catalytic residues [active] 477974004810 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 477974004811 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 477974004812 putative active site [active] 477974004813 oxyanion strand; other site 477974004814 catalytic triad [active] 477974004815 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 477974004816 putative active site pocket [active] 477974004817 4-fold oligomerization interface [polypeptide binding]; other site 477974004818 metal binding residues [ion binding]; metal-binding site 477974004819 3-fold/trimer interface [polypeptide binding]; other site 477974004820 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 477974004821 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 477974004822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974004823 homodimer interface [polypeptide binding]; other site 477974004824 catalytic residue [active] 477974004825 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 477974004826 histidinol dehydrogenase; Region: hisD; TIGR00069 477974004827 NAD binding site [chemical binding]; other site 477974004828 dimerization interface [polypeptide binding]; other site 477974004829 product binding site; other site 477974004830 substrate binding site [chemical binding]; other site 477974004831 zinc binding site [ion binding]; other site 477974004832 catalytic residues [active] 477974004833 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 477974004834 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 477974004835 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 477974004836 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 477974004837 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 477974004838 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 477974004839 purine monophosphate binding site [chemical binding]; other site 477974004840 dimer interface [polypeptide binding]; other site 477974004841 putative catalytic residues [active] 477974004842 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 477974004843 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 477974004844 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 477974004845 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 477974004846 active site 477974004847 substrate binding site [chemical binding]; other site 477974004848 cosubstrate binding site; other site 477974004849 catalytic site [active] 477974004850 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 477974004851 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 477974004852 dimerization interface [polypeptide binding]; other site 477974004853 putative ATP binding site [chemical binding]; other site 477974004854 amidophosphoribosyltransferase; Provisional; Region: PRK05793 477974004855 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 477974004856 active site 477974004857 tetramer interface [polypeptide binding]; other site 477974004858 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 477974004859 active site 477974004860 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 477974004861 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 477974004862 ATP binding site [chemical binding]; other site 477974004863 active site 477974004864 substrate binding site [chemical binding]; other site 477974004865 adenylosuccinate lyase; Provisional; Region: PRK07492 477974004866 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 477974004867 tetramer interface [polypeptide binding]; other site 477974004868 active site 477974004869 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 477974004870 GMP synthase; Reviewed; Region: guaA; PRK00074 477974004871 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 477974004872 AMP/PPi binding site [chemical binding]; other site 477974004873 candidate oxyanion hole; other site 477974004874 catalytic triad [active] 477974004875 potential glutamine specificity residues [chemical binding]; other site 477974004876 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 477974004877 ATP Binding subdomain [chemical binding]; other site 477974004878 Ligand Binding sites [chemical binding]; other site 477974004879 Dimerization subdomain; other site 477974004880 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 477974004881 active site 477974004882 Uncharacterized conserved protein [Function unknown]; Region: COG4198 477974004883 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 477974004884 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 477974004885 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 477974004886 Ligand Binding Site [chemical binding]; other site 477974004887 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 477974004888 Ligand Binding Site [chemical binding]; other site 477974004889 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 477974004890 dimerization interface [polypeptide binding]; other site 477974004891 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 477974004892 ATP binding site [chemical binding]; other site 477974004893 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 477974004894 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 477974004895 HupF/HypC family; Region: HupF_HypC; pfam01455 477974004896 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 477974004897 Acylphosphatase; Region: Acylphosphatase; pfam00708 477974004898 HypF finger; Region: zf-HYPF; pfam07503 477974004899 HypF finger; Region: zf-HYPF; pfam07503 477974004900 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 477974004901 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 477974004902 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 477974004903 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 477974004904 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 477974004905 nickel binding site [ion binding]; other site 477974004906 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 477974004907 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 477974004908 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 477974004909 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 477974004910 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 477974004911 MviN-like protein; Region: MVIN; pfam03023 477974004912 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 477974004913 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 477974004914 active site 477974004915 homotetramer interface [polypeptide binding]; other site 477974004916 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 477974004917 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 477974004918 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 477974004919 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 477974004920 NAD binding site [chemical binding]; other site 477974004921 homodimer interface [polypeptide binding]; other site 477974004922 active site 477974004923 substrate binding site [chemical binding]; other site 477974004924 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 477974004925 nucleotide binding site/active site [active] 477974004926 HIT family signature motif; other site 477974004927 catalytic residue [active] 477974004928 amphi-Trp domain; Region: amphi-Trp; TIGR04354 477974004929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 477974004930 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 477974004931 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 477974004932 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 477974004933 Chain length determinant protein; Region: Wzz; pfam02706 477974004934 Chain length determinant protein; Region: Wzz; cl15801 477974004935 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 477974004936 O-Antigen ligase; Region: Wzy_C; pfam04932 477974004937 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 477974004938 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 477974004939 YvrJ protein family; Region: YvrJ; pfam12841 477974004940 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 477974004941 amidase catalytic site [active] 477974004942 Zn binding residues [ion binding]; other site 477974004943 substrate binding site [chemical binding]; other site 477974004944 Sporulation related domain; Region: SPOR; pfam05036 477974004945 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 477974004946 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 477974004947 Part of AAA domain; Region: AAA_19; pfam13245 477974004948 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 477974004949 AAA domain; Region: AAA_12; pfam13087 477974004950 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 477974004951 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 477974004952 ATP binding site [chemical binding]; other site 477974004953 putative Mg++ binding site [ion binding]; other site 477974004954 nucleotide binding region [chemical binding]; other site 477974004955 helicase superfamily c-terminal domain; Region: HELICc; smart00490 477974004956 ATP-binding site [chemical binding]; other site 477974004957 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 477974004958 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 477974004959 Part of AAA domain; Region: AAA_19; pfam13245 477974004960 Protein of unknown function (DUF2281); Region: DUF2281; pfam10047 477974004961 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 477974004962 active site 477974004963 NTP binding site [chemical binding]; other site 477974004964 metal binding triad [ion binding]; metal-binding site 477974004965 antibiotic binding site [chemical binding]; other site 477974004966 Uncharacterized conserved protein [Function unknown]; Region: COG2445 477974004967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 477974004968 Protein of unknown function (DUF433); Region: DUF433; pfam04255 477974004969 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 477974004970 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 477974004971 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 477974004972 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 477974004973 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 477974004974 NAD binding site [chemical binding]; other site 477974004975 substrate binding site [chemical binding]; other site 477974004976 homodimer interface [polypeptide binding]; other site 477974004977 active site 477974004978 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 477974004979 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 477974004980 NADP binding site [chemical binding]; other site 477974004981 active site 477974004982 putative substrate binding site [chemical binding]; other site 477974004983 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 477974004984 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 477974004985 substrate binding site; other site 477974004986 metal-binding site 477974004987 Oligomer interface; other site 477974004988 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 477974004989 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 477974004990 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974004991 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 477974004992 putative ADP-binding pocket [chemical binding]; other site 477974004993 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 477974004994 S-adenosylmethionine binding site [chemical binding]; other site 477974004995 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974004996 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 477974004997 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 477974004998 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 477974004999 Probable Catalytic site; other site 477974005000 metal-binding site 477974005001 Methyltransferase domain; Region: Methyltransf_23; pfam13489 477974005002 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 477974005003 S-adenosylmethionine binding site [chemical binding]; other site 477974005004 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 477974005005 active site 477974005006 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 477974005007 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 477974005008 active site 477974005009 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 477974005010 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 477974005011 inhibitor-cofactor binding pocket; inhibition site 477974005012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974005013 catalytic residue [active] 477974005014 WxcM-like, C-terminal; Region: FdtA; pfam05523 477974005015 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 477974005016 putative trimer interface [polypeptide binding]; other site 477974005017 putative CoA binding site [chemical binding]; other site 477974005018 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 477974005019 putative trimer interface [polypeptide binding]; other site 477974005020 putative CoA binding site [chemical binding]; other site 477974005021 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 477974005022 Sulfatase; Region: Sulfatase; pfam00884 477974005023 Sulfatase; Region: Sulfatase; cl17466 477974005024 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 477974005025 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 477974005026 Active Sites [active] 477974005027 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 477974005028 Bacterial sugar transferase; Region: Bac_transf; pfam02397 477974005029 Transcription antiterminator [Transcription]; Region: NusG; COG0250 477974005030 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 477974005031 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 477974005032 heterodimer interface [polypeptide binding]; other site 477974005033 homodimer interface [polypeptide binding]; other site 477974005034 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 477974005035 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 477974005036 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 477974005037 putative active site [active] 477974005038 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 477974005039 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 477974005040 DNA binding residues [nucleotide binding] 477974005041 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 477974005042 catalytic residues [active] 477974005043 catalytic nucleophile [active] 477974005044 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 477974005045 putative active site [active] 477974005046 S-layer homology domain; Region: SLH; pfam00395 477974005047 S-layer homology domain; Region: SLH; pfam00395 477974005048 S-layer homology domain; Region: SLH; pfam00395 477974005049 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 477974005050 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 477974005051 N-acetyl-D-glucosamine binding site [chemical binding]; other site 477974005052 catalytic residue [active] 477974005053 Domain of unknown function (DUF368); Region: DUF368; pfam04018 477974005054 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 477974005055 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 477974005056 putative FMN binding site [chemical binding]; other site 477974005057 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 477974005058 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 477974005059 FeS/SAM binding site; other site 477974005060 Response regulator receiver domain; Region: Response_reg; pfam00072 477974005061 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 477974005062 active site 477974005063 phosphorylation site [posttranslational modification] 477974005064 intermolecular recognition site; other site 477974005065 dimerization interface [polypeptide binding]; other site 477974005066 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 477974005067 metal binding site [ion binding]; metal-binding site 477974005068 nucleotidyl binding site; other site 477974005069 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 477974005070 Radical SAM superfamily; Region: Radical_SAM; pfam04055 477974005071 FeS/SAM binding site; other site 477974005072 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 477974005073 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 477974005074 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 477974005075 nucleophile elbow; other site 477974005076 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 477974005077 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 477974005078 putative acyl-acceptor binding pocket; other site 477974005079 PAS fold; Region: PAS_3; pfam08447 477974005080 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 477974005081 putative active site [active] 477974005082 heme pocket [chemical binding]; other site 477974005083 GAF domain; Region: GAF; pfam01590 477974005084 GAF domain; Region: GAF_2; pfam13185 477974005085 PAS domain S-box; Region: sensory_box; TIGR00229 477974005086 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 477974005087 putative active site [active] 477974005088 heme pocket [chemical binding]; other site 477974005089 PAS fold; Region: PAS_3; pfam08447 477974005090 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 477974005091 putative active site [active] 477974005092 heme pocket [chemical binding]; other site 477974005093 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 477974005094 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 477974005095 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 477974005096 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 477974005097 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 477974005098 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974005099 Zn2+ binding site [ion binding]; other site 477974005100 Mg2+ binding site [ion binding]; other site 477974005101 Probable transposase; Region: OrfB_IS605; pfam01385 477974005102 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 477974005103 Transposase IS200 like; Region: Y1_Tnp; pfam01797 477974005104 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 477974005105 O-Antigen ligase; Region: Wzy_C; pfam04932 477974005106 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 477974005107 TPR motif; other site 477974005108 binding surface 477974005109 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 477974005110 ABC1 family; Region: ABC1; pfam03109 477974005111 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 477974005112 active site 477974005113 ATP binding site [chemical binding]; other site 477974005114 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974005115 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974005116 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 477974005117 CheC-like family; Region: CheC; pfam04509 477974005118 CheC-like family; Region: CheC; pfam04509 477974005119 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 477974005120 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 477974005121 Response regulator receiver domain; Region: Response_reg; pfam00072 477974005122 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 477974005123 active site 477974005124 phosphorylation site [posttranslational modification] 477974005125 intermolecular recognition site; other site 477974005126 dimerization interface [polypeptide binding]; other site 477974005127 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 477974005128 CheC-like family; Region: CheC; pfam04509 477974005129 Chemotaxis phosphatase CheX; Region: CheX; cl15816 477974005130 CheC-like family; Region: CheC; pfam04509 477974005131 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 477974005132 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 477974005133 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 477974005134 S-adenosylmethionine binding site [chemical binding]; other site 477974005135 CheD chemotactic sensory transduction; Region: CheD; cl00810 477974005136 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 477974005137 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 477974005138 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 477974005139 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 477974005140 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974005141 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 477974005142 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 477974005143 DNA binding residues [nucleotide binding] 477974005144 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 477974005145 Flagellar protein YcgR; Region: YcgR_2; pfam12945 477974005146 PilZ domain; Region: PilZ; pfam07238 477974005147 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 477974005148 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 477974005149 P-loop; other site 477974005150 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 477974005151 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 477974005152 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 477974005153 FHIPEP family; Region: FHIPEP; pfam00771 477974005154 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 477974005155 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 477974005156 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 477974005157 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 477974005158 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974005159 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974005160 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 477974005161 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 477974005162 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 477974005163 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 477974005164 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 477974005165 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 477974005166 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 477974005167 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 477974005168 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 477974005169 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 477974005170 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 477974005171 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 477974005172 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 477974005173 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 477974005174 Walker A motif/ATP binding site; other site 477974005175 Walker B motif; other site 477974005176 Flagellar assembly protein FliH; Region: FliH; pfam02108 477974005177 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 477974005178 FliG C-terminal domain; Region: FliG_C; pfam01706 477974005179 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 477974005180 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 477974005181 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 477974005182 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 477974005183 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 477974005184 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 477974005185 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 477974005186 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 477974005187 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 477974005188 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 477974005189 active site 477974005190 NTP binding site [chemical binding]; other site 477974005191 metal binding triad [ion binding]; metal-binding site 477974005192 antibiotic binding site [chemical binding]; other site 477974005193 Protein of unknown function DUF86; Region: DUF86; pfam01934 477974005194 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 477974005195 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 477974005196 inhibitor-cofactor binding pocket; inhibition site 477974005197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974005198 catalytic residue [active] 477974005199 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 477974005200 ligand binding site; other site 477974005201 pseudaminic acid synthase; Region: PseI; TIGR03586 477974005202 NeuB family; Region: NeuB; pfam03102 477974005203 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 477974005204 NeuB binding interface [polypeptide binding]; other site 477974005205 putative substrate binding site [chemical binding]; other site 477974005206 HAD superfamily (subfamily IA) hydrolase, TIGR02253; Region: CTE7 477974005207 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 477974005208 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 477974005209 motif II; other site 477974005210 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 477974005211 ATP-grasp domain; Region: ATP-grasp_4; cl17255 477974005212 Methyltransferase domain; Region: Methyltransf_23; pfam13489 477974005213 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 477974005214 S-adenosylmethionine binding site [chemical binding]; other site 477974005215 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 477974005216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974005217 NAD(P) binding site [chemical binding]; other site 477974005218 active site 477974005219 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 477974005220 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 477974005221 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 477974005222 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 477974005223 NAD(P) binding site [chemical binding]; other site 477974005224 homodimer interface [polypeptide binding]; other site 477974005225 substrate binding site [chemical binding]; other site 477974005226 active site 477974005227 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 477974005228 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 477974005229 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 477974005230 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 477974005231 FlaG protein; Region: FlaG; pfam03646 477974005232 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 477974005233 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 477974005234 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 477974005235 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 477974005236 FlgN protein; Region: FlgN; pfam05130 477974005237 FlaG protein; Region: FlaG; cl00591 477974005238 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 477974005239 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 477974005240 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 477974005241 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 477974005242 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 477974005243 FlgN protein; Region: FlgN; pfam05130 477974005244 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 477974005245 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 477974005246 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 477974005247 active site 477974005248 phosphorylation site [posttranslational modification] 477974005249 intermolecular recognition site; other site 477974005250 dimerization interface [polypeptide binding]; other site 477974005251 CheB methylesterase; Region: CheB_methylest; pfam01339 477974005252 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 477974005253 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 477974005254 putative binding surface; other site 477974005255 active site 477974005256 P2 response regulator binding domain; Region: P2; pfam07194 477974005257 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 477974005258 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 477974005259 ATP binding site [chemical binding]; other site 477974005260 Mg2+ binding site [ion binding]; other site 477974005261 G-X-G motif; other site 477974005262 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 477974005263 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 477974005264 putative CheA interaction surface; other site 477974005265 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 477974005266 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 477974005267 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 477974005268 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 477974005269 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 477974005270 ligand binding site [chemical binding]; other site 477974005271 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 477974005272 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 477974005273 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 477974005274 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 477974005275 CRISPR/Cas system-associated RAMP superfamily protein Csx10; Region: Csx10; cl17558 477974005276 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 477974005277 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 477974005278 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 477974005279 Transposase domain (DUF772); Region: DUF772; pfam05598 477974005280 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974005281 Transposase domain (DUF772); Region: DUF772; pfam05598 477974005282 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974005283 Transposase domain (DUF772); Region: DUF772; pfam05598 477974005284 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974005285 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 477974005286 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 477974005287 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 477974005288 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 477974005289 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 477974005290 CRISPR-associated protein Cas5, subtype I-B/TNEAP; Region: cas_Cas5t; TIGR01895 477974005291 CRISPR-associated autoregulator DevR family; Region: cas_MJ0381; TIGR01875 477974005292 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 477974005293 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 477974005294 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 477974005295 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 477974005296 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cd09682 477974005297 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 477974005298 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 477974005299 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cd09748 477974005300 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 477974005301 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 477974005302 Divergent AAA domain; Region: AAA_4; pfam04326 477974005303 CRISPR/Cas system-associated protein Csx15; Region: Csx15_I-U; cd09766 477974005304 CRISPR/Cas system-associated protein Csx15; Region: Csx15_I-U; cd09766 477974005305 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl09839 477974005306 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 477974005307 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 477974005308 DNA binding residues [nucleotide binding] 477974005309 Helix-turn-helix domain; Region: HTH_17; pfam12728 477974005310 PemK-like protein; Region: PemK; pfam02452 477974005311 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 477974005312 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 477974005313 RNA/DNA hybrid binding site [nucleotide binding]; other site 477974005314 active site 477974005315 Fructose-1,6-bisphosphatase; Region: FBPase_3; pfam01950 477974005316 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 477974005317 dimer interface [polypeptide binding]; other site 477974005318 substrate binding site [chemical binding]; other site 477974005319 metal binding sites [ion binding]; metal-binding site 477974005320 CrcB-like protein; Region: CRCB; cl09114 477974005321 FOG: CBS domain [General function prediction only]; Region: COG0517 477974005322 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 477974005323 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974005324 Zn2+ binding site [ion binding]; other site 477974005325 Mg2+ binding site [ion binding]; other site 477974005326 Response regulator receiver domain; Region: Response_reg; pfam00072 477974005327 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 477974005328 active site 477974005329 phosphorylation site [posttranslational modification] 477974005330 intermolecular recognition site; other site 477974005331 dimerization interface [polypeptide binding]; other site 477974005332 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 477974005333 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974005334 metal binding site [ion binding]; metal-binding site 477974005335 active site 477974005336 I-site; other site 477974005337 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 477974005338 cobyric acid synthase; Provisional; Region: PRK00784 477974005339 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 477974005340 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 477974005341 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 477974005342 catalytic triad [active] 477974005343 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 477974005344 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 477974005345 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974005346 homodimer interface [polypeptide binding]; other site 477974005347 catalytic residue [active] 477974005348 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 477974005349 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 477974005350 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 477974005351 catalytic triad [active] 477974005352 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 477974005353 active site 477974005354 SAM binding site [chemical binding]; other site 477974005355 homodimer interface [polypeptide binding]; other site 477974005356 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 477974005357 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 477974005358 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 477974005359 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 477974005360 active site 477974005361 SAM binding site [chemical binding]; other site 477974005362 homodimer interface [polypeptide binding]; other site 477974005363 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 477974005364 active site 477974005365 SAM binding site [chemical binding]; other site 477974005366 homodimer interface [polypeptide binding]; other site 477974005367 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 477974005368 active site 477974005369 putative homodimer interface [polypeptide binding]; other site 477974005370 SAM binding site [chemical binding]; other site 477974005371 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 477974005372 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 477974005373 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 477974005374 putative active site [active] 477974005375 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13639 477974005376 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 477974005377 Walker A/P-loop; other site 477974005378 ATP binding site [chemical binding]; other site 477974005379 Q-loop/lid; other site 477974005380 ABC transporter signature motif; other site 477974005381 Walker B; other site 477974005382 D-loop; other site 477974005383 H-loop/switch region; other site 477974005384 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 477974005385 Precorrin-8X methylmutase; Region: CbiC; pfam02570 477974005386 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 477974005387 cobalt transport protein CbiN; Provisional; Region: PRK02898 477974005388 cobalt transport protein CbiM; Validated; Region: PRK08319 477974005389 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 477974005390 Helix-turn-helix domain; Region: HTH_28; pfam13518 477974005391 Winged helix-turn helix; Region: HTH_29; pfam13551 477974005392 Integrase core domain; Region: rve; pfam00665 477974005393 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 477974005394 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 477974005395 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 477974005396 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 477974005397 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 477974005398 motif II; other site 477974005399 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 477974005400 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 477974005401 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 477974005402 HIGH motif; other site 477974005403 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 477974005404 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 477974005405 active site 477974005406 KMSKS motif; other site 477974005407 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 477974005408 tRNA binding surface [nucleotide binding]; other site 477974005409 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 477974005410 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 477974005411 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 477974005412 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 477974005413 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 477974005414 active site 477974005415 (T/H)XGH motif; other site 477974005416 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 477974005417 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 477974005418 active site 477974005419 metal binding site [ion binding]; metal-binding site 477974005420 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 477974005421 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 477974005422 putative catalytic cysteine [active] 477974005423 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 477974005424 nucleotide binding site/active site [active] 477974005425 HIT family signature motif; other site 477974005426 catalytic residue [active] 477974005427 gamma-glutamyl kinase; Provisional; Region: PRK05429 477974005428 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 477974005429 nucleotide binding site [chemical binding]; other site 477974005430 homotetrameric interface [polypeptide binding]; other site 477974005431 putative phosphate binding site [ion binding]; other site 477974005432 putative allosteric binding site; other site 477974005433 PUA domain; Region: PUA; pfam01472 477974005434 GTPase CgtA; Reviewed; Region: obgE; PRK12297 477974005435 GTP1/OBG; Region: GTP1_OBG; pfam01018 477974005436 Obg GTPase; Region: Obg; cd01898 477974005437 G1 box; other site 477974005438 GTP/Mg2+ binding site [chemical binding]; other site 477974005439 Switch I region; other site 477974005440 G2 box; other site 477974005441 G3 box; other site 477974005442 Switch II region; other site 477974005443 G4 box; other site 477974005444 G5 box; other site 477974005445 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 477974005446 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 477974005447 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 477974005448 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 477974005449 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 477974005450 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 477974005451 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 477974005452 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 477974005453 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 477974005454 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 477974005455 metal-binding site [ion binding] 477974005456 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 477974005457 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 477974005458 metal-binding site [ion binding] 477974005459 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 477974005460 Soluble P-type ATPase [General function prediction only]; Region: COG4087 477974005461 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 477974005462 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 477974005463 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 477974005464 protein binding site [polypeptide binding]; other site 477974005465 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 477974005466 Cysteine-rich domain; Region: CCG; pfam02754 477974005467 Cysteine-rich domain; Region: CCG; pfam02754 477974005468 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 477974005469 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 477974005470 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974005471 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 477974005472 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 477974005473 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 477974005474 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 477974005475 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 477974005476 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 477974005477 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 477974005478 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 477974005479 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 477974005480 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 477974005481 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 477974005482 Protein of unknown function (DUF964); Region: DUF964; pfam06133 477974005483 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 477974005484 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 477974005485 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 477974005486 L-aspartate oxidase; Provisional; Region: PRK06175 477974005487 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 477974005488 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 477974005489 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 477974005490 MPT binding site; other site 477974005491 trimer interface [polypeptide binding]; other site 477974005492 MOSC domain; Region: MOSC; pfam03473 477974005493 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 477974005494 trimer interface [polypeptide binding]; other site 477974005495 dimer interface [polypeptide binding]; other site 477974005496 putative active site [active] 477974005497 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 477974005498 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 477974005499 dimer interface [polypeptide binding]; other site 477974005500 putative functional site; other site 477974005501 putative MPT binding site; other site 477974005502 PBP superfamily domain; Region: PBP_like; pfam12727 477974005503 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 477974005504 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 477974005505 dimer interface [polypeptide binding]; other site 477974005506 putative functional site; other site 477974005507 putative MPT binding site; other site 477974005508 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 477974005509 dimer interface [polypeptide binding]; other site 477974005510 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 477974005511 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 477974005512 active site 477974005513 phosphorylation site [posttranslational modification] 477974005514 intermolecular recognition site; other site 477974005515 dimerization interface [polypeptide binding]; other site 477974005516 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 477974005517 DNA binding site [nucleotide binding] 477974005518 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 477974005519 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 477974005520 dimerization interface [polypeptide binding]; other site 477974005521 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 477974005522 dimer interface [polypeptide binding]; other site 477974005523 phosphorylation site [posttranslational modification] 477974005524 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 477974005525 ATP binding site [chemical binding]; other site 477974005526 Mg2+ binding site [ion binding]; other site 477974005527 G-X-G motif; other site 477974005528 Predicted permease; Region: DUF318; cl17795 477974005529 Predicted permease; Region: DUF318; cl17795 477974005530 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 477974005531 dimerization interface [polypeptide binding]; other site 477974005532 putative DNA binding site [nucleotide binding]; other site 477974005533 putative Zn2+ binding site [ion binding]; other site 477974005534 hypothetical protein; Provisional; Region: PRK04164 477974005535 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 477974005536 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 477974005537 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 477974005538 Prephenate dehydratase; Region: PDT; pfam00800 477974005539 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 477974005540 putative L-Phe binding site [chemical binding]; other site 477974005541 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 477974005542 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 477974005543 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 477974005544 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 477974005545 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 477974005546 dimer interface [polypeptide binding]; other site 477974005547 phosphorylation site [posttranslational modification] 477974005548 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 477974005549 ATP binding site [chemical binding]; other site 477974005550 Mg2+ binding site [ion binding]; other site 477974005551 G-X-G motif; other site 477974005552 Response regulator receiver domain; Region: Response_reg; pfam00072 477974005553 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 477974005554 active site 477974005555 phosphorylation site [posttranslational modification] 477974005556 intermolecular recognition site; other site 477974005557 dimerization interface [polypeptide binding]; other site 477974005558 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 477974005559 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 477974005560 TM-ABC transporter signature motif; other site 477974005561 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 477974005562 DNA binding residues [nucleotide binding] 477974005563 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 477974005564 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 477974005565 catalytic residues [active] 477974005566 catalytic nucleophile [active] 477974005567 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 477974005568 non-specific DNA binding site [nucleotide binding]; other site 477974005569 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 477974005570 salt bridge; other site 477974005571 sequence-specific DNA binding site [nucleotide binding]; other site 477974005572 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 477974005573 Catalytic site [active] 477974005574 Flagellin N-methylase; Region: FliB; pfam03692 477974005575 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 477974005576 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 477974005577 RmuC family; Region: RmuC; pfam02646 477974005578 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 477974005579 Double zinc ribbon; Region: DZR; pfam12773 477974005580 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974005581 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 477974005582 dimer interface [polypeptide binding]; other site 477974005583 [2Fe-2S] cluster binding site [ion binding]; other site 477974005584 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 477974005585 SLBB domain; Region: SLBB; pfam10531 477974005586 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 477974005587 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 477974005588 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 477974005589 putative dimer interface [polypeptide binding]; other site 477974005590 [2Fe-2S] cluster binding site [ion binding]; other site 477974005591 pyruvate phosphate dikinase; Provisional; Region: PRK09279 477974005592 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 477974005593 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 477974005594 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 477974005595 fumarate hydratase; Provisional; Region: PRK06246 477974005596 Fumarase C-terminus; Region: Fumerase_C; pfam05683 477974005597 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 477974005598 Iron-sulfur protein interface; other site 477974005599 proximal heme binding site [chemical binding]; other site 477974005600 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 477974005601 L-aspartate oxidase; Provisional; Region: PRK06175 477974005602 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 477974005603 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 477974005604 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 477974005605 Uncharacterized conserved protein [Function unknown]; Region: COG1624 477974005606 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 477974005607 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 477974005608 Ligand Binding Site [chemical binding]; other site 477974005609 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 477974005610 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 477974005611 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 477974005612 Spore germination protein; Region: Spore_permease; cl17796 477974005613 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 477974005614 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 477974005615 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 477974005616 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; cl00859 477974005617 Flagellin N-methylase; Region: FliB; cl00497 477974005618 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 477974005619 catalytic motif [active] 477974005620 Zn binding site [ion binding]; other site 477974005621 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 477974005622 FMN binding site [chemical binding]; other site 477974005623 dimer interface [polypeptide binding]; other site 477974005624 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 477974005625 Ligand Binding Site [chemical binding]; other site 477974005626 phosphoenolpyruvate synthase; Validated; Region: PRK06464 477974005627 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 477974005628 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 477974005629 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 477974005630 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 477974005631 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 477974005632 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 477974005633 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974005634 Zn2+ binding site [ion binding]; other site 477974005635 Mg2+ binding site [ion binding]; other site 477974005636 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 477974005637 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 477974005638 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 477974005639 G1 box; other site 477974005640 GTP/Mg2+ binding site [chemical binding]; other site 477974005641 Switch I region; other site 477974005642 G2 box; other site 477974005643 G3 box; other site 477974005644 Switch II region; other site 477974005645 G4 box; other site 477974005646 G5 box; other site 477974005647 Nucleoside recognition; Region: Gate; pfam07670 477974005648 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 477974005649 Nucleoside recognition; Region: Gate; pfam07670 477974005650 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 477974005651 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 477974005652 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974005653 Transposase [DNA replication, recombination, and repair]; Region: COG5421 477974005654 PBP superfamily domain; Region: PBP_like_2; cl17296 477974005655 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 477974005656 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 477974005657 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 477974005658 active site 477974005659 metal binding site [ion binding]; metal-binding site 477974005660 homotetramer interface [polypeptide binding]; other site 477974005661 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 477974005662 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 477974005663 dimer interface [polypeptide binding]; other site 477974005664 conserved gate region; other site 477974005665 putative PBP binding loops; other site 477974005666 ABC-ATPase subunit interface; other site 477974005667 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 477974005668 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 477974005669 dimer interface [polypeptide binding]; other site 477974005670 conserved gate region; other site 477974005671 putative PBP binding loops; other site 477974005672 ABC-ATPase subunit interface; other site 477974005673 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 477974005674 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 477974005675 TPP-binding site [chemical binding]; other site 477974005676 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 477974005677 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 477974005678 dimer interface [polypeptide binding]; other site 477974005679 PYR/PP interface [polypeptide binding]; other site 477974005680 TPP binding site [chemical binding]; other site 477974005681 substrate binding site [chemical binding]; other site 477974005682 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 477974005683 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 477974005684 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 477974005685 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 477974005686 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 477974005687 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 477974005688 TPP-binding site [chemical binding]; other site 477974005689 dimer interface [polypeptide binding]; other site 477974005690 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 477974005691 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 477974005692 dimer interface [polypeptide binding]; other site 477974005693 PYR/PP interface [polypeptide binding]; other site 477974005694 TPP binding site [chemical binding]; other site 477974005695 substrate binding site [chemical binding]; other site 477974005696 CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit; Region: CO_dh; pfam02552 477974005697 Domain of unknown function (DUF897); Region: DUF897; pfam05982 477974005698 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 477974005699 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 477974005700 ATP-grasp domain; Region: ATP-grasp; pfam02222 477974005701 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 477974005702 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 477974005703 Transposase [DNA replication, recombination, and repair]; Region: COG5421 477974005704 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 477974005705 putative active site [active] 477974005706 Mn binding site [ion binding]; other site 477974005707 spermidine synthase; Provisional; Region: PRK00811 477974005708 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 477974005709 S-adenosylmethionine binding site [chemical binding]; other site 477974005710 pyruvoyl-dependent arginine decarboxylase; Reviewed; Region: PRK01285 477974005711 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 477974005712 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 477974005713 DNA interaction; other site 477974005714 Metal-binding active site; metal-binding site 477974005715 AP (apurinic/apyrimidinic) site pocket; other site 477974005716 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 477974005717 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 477974005718 peptide binding site [polypeptide binding]; other site 477974005719 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 477974005720 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 477974005721 Methyltransferase domain; Region: Methyltransf_31; pfam13847 477974005722 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 477974005723 S-adenosylmethionine binding site [chemical binding]; other site 477974005724 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 477974005725 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 477974005726 FeS/SAM binding site; other site 477974005727 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 477974005728 dimerization interface [polypeptide binding]; other site 477974005729 putative ATP binding site [chemical binding]; other site 477974005730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 477974005731 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 477974005732 dimerization interface [polypeptide binding]; other site 477974005733 Radical SAM superfamily; Region: Radical_SAM; pfam04055 477974005734 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 477974005735 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 477974005736 FeS/SAM binding site; other site 477974005737 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 477974005738 ATP cone domain; Region: ATP-cone; pfam03477 477974005739 Class III ribonucleotide reductase; Region: RNR_III; cd01675 477974005740 effector binding site; other site 477974005741 active site 477974005742 Zn binding site [ion binding]; other site 477974005743 glycine loop; other site 477974005744 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 477974005745 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 477974005746 THF binding site; other site 477974005747 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 477974005748 substrate binding site [chemical binding]; other site 477974005749 THF binding site; other site 477974005750 zinc-binding site [ion binding]; other site 477974005751 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 477974005752 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 477974005753 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 477974005754 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 477974005755 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 477974005756 Cation efflux family; Region: Cation_efflux; pfam01545 477974005757 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 477974005758 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 477974005759 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 477974005760 ligand binding site [chemical binding]; other site 477974005761 flexible hinge region; other site 477974005762 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 477974005763 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 477974005764 metal binding triad; other site 477974005765 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 477974005766 active site 477974005767 catalytic site [active] 477974005768 substrate binding site [chemical binding]; other site 477974005769 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 477974005770 Domain of unknown function DUF21; Region: DUF21; pfam01595 477974005771 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 477974005772 Transporter associated domain; Region: CorC_HlyC; smart01091 477974005773 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 477974005774 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 477974005775 ring oligomerisation interface [polypeptide binding]; other site 477974005776 ATP/Mg binding site [chemical binding]; other site 477974005777 stacking interactions; other site 477974005778 hinge regions; other site 477974005779 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 477974005780 oligomerisation interface [polypeptide binding]; other site 477974005781 mobile loop; other site 477974005782 roof hairpin; other site 477974005783 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 477974005784 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 477974005785 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 477974005786 UGMP family protein; Validated; Region: PRK09604 477974005787 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 477974005788 Probable zinc-binding domain; Region: zf-trcl; pfam13451 477974005789 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 477974005790 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 477974005791 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 477974005792 Coenzyme A binding pocket [chemical binding]; other site 477974005793 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 477974005794 Glycoprotease family; Region: Peptidase_M22; pfam00814 477974005795 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 477974005796 thiamine monophosphate kinase; Provisional; Region: PRK05731 477974005797 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 477974005798 ATP binding site [chemical binding]; other site 477974005799 dimerization interface [polypeptide binding]; other site 477974005800 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 477974005801 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 477974005802 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 477974005803 thiamine phosphate binding site [chemical binding]; other site 477974005804 active site 477974005805 pyrophosphate binding site [ion binding]; other site 477974005806 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 477974005807 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 477974005808 active site 477974005809 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 477974005810 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 477974005811 catalytic triad [active] 477974005812 glutamine synthetase, type I; Region: GlnA; TIGR00653 477974005813 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 477974005814 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 477974005815 Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous to...; Region: arch_gltB; cd00981 477974005816 putative subunit interface; other site 477974005817 4Fe-4S binding domain; Region: Fer4; pfam00037 477974005818 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 477974005819 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 477974005820 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 477974005821 active site 477974005822 FMN binding site [chemical binding]; other site 477974005823 substrate binding site [chemical binding]; other site 477974005824 3Fe-4S cluster binding site [ion binding]; other site 477974005825 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 477974005826 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 477974005827 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 477974005828 putative active site [active] 477974005829 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 477974005830 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 477974005831 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 477974005832 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 477974005833 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 477974005834 active site 477974005835 phosphorylation site [posttranslational modification] 477974005836 intermolecular recognition site; other site 477974005837 dimerization interface [polypeptide binding]; other site 477974005838 ANTAR domain; Region: ANTAR; pfam03861 477974005839 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 477974005840 phosphate binding site [ion binding]; other site 477974005841 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 477974005842 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 477974005843 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 477974005844 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 477974005845 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 477974005846 active site 477974005847 phosphorylation site [posttranslational modification] 477974005848 intermolecular recognition site; other site 477974005849 dimerization interface [polypeptide binding]; other site 477974005850 ANTAR domain; Region: ANTAR; pfam03861 477974005851 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 477974005852 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 477974005853 homodimer interface [polypeptide binding]; other site 477974005854 substrate-cofactor binding pocket; other site 477974005855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974005856 catalytic residue [active] 477974005857 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 477974005858 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 477974005859 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 477974005860 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 477974005861 Major Facilitator Superfamily; Region: MFS_1; pfam07690 477974005862 putative substrate translocation pore; other site 477974005863 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 477974005864 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 477974005865 Ligand Binding Site [chemical binding]; other site 477974005866 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 477974005867 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 477974005868 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974005869 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 477974005870 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 477974005871 ligand binding site [chemical binding]; other site 477974005872 flexible hinge region; other site 477974005873 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 477974005874 putative switch regulator; other site 477974005875 non-specific DNA interactions [nucleotide binding]; other site 477974005876 DNA binding site [nucleotide binding] 477974005877 sequence specific DNA binding site [nucleotide binding]; other site 477974005878 putative cAMP binding site [chemical binding]; other site 477974005879 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 477974005880 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 477974005881 dimer interface [polypeptide binding]; other site 477974005882 recombination factor protein RarA; Reviewed; Region: PRK13342 477974005883 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 477974005884 Walker A motif; other site 477974005885 ATP binding site [chemical binding]; other site 477974005886 Walker B motif; other site 477974005887 arginine finger; other site 477974005888 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 477974005889 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974005890 VanW like protein; Region: VanW; pfam04294 477974005891 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 477974005892 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 477974005893 putative catalytic cysteine [active] 477974005894 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 477974005895 putative active site [active] 477974005896 metal binding site [ion binding]; metal-binding site 477974005897 GTPase Era; Reviewed; Region: era; PRK00089 477974005898 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 477974005899 G1 box; other site 477974005900 GTP/Mg2+ binding site [chemical binding]; other site 477974005901 Switch I region; other site 477974005902 G2 box; other site 477974005903 Switch II region; other site 477974005904 G3 box; other site 477974005905 G4 box; other site 477974005906 G5 box; other site 477974005907 KH domain; Region: KH_2; pfam07650 477974005908 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 477974005909 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 477974005910 active site 477974005911 catalytic motif [active] 477974005912 Zn binding site [ion binding]; other site 477974005913 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 477974005914 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 477974005915 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974005916 Zn2+ binding site [ion binding]; other site 477974005917 Mg2+ binding site [ion binding]; other site 477974005918 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 477974005919 PhoH-like protein; Region: PhoH; pfam02562 477974005920 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 477974005921 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 477974005922 YabP family; Region: YabP; cl06766 477974005923 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 477974005924 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 477974005925 nucleotide binding site/active site [active] 477974005926 HIT family signature motif; other site 477974005927 catalytic residue [active] 477974005928 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 477974005929 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 477974005930 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 477974005931 FeS/SAM binding site; other site 477974005932 RNA methyltransferase, RsmE family; Region: TIGR00046 477974005933 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 477974005934 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 477974005935 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 477974005936 S-adenosylmethionine binding site [chemical binding]; other site 477974005937 chaperone protein DnaJ; Provisional; Region: PRK10767 477974005938 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 477974005939 HSP70 interaction site [polypeptide binding]; other site 477974005940 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 477974005941 substrate binding site [polypeptide binding]; other site 477974005942 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 477974005943 Zn binding sites [ion binding]; other site 477974005944 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 477974005945 dimer interface [polypeptide binding]; other site 477974005946 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 477974005947 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 477974005948 nucleotide binding site [chemical binding]; other site 477974005949 NEF interaction site [polypeptide binding]; other site 477974005950 SBD interface [polypeptide binding]; other site 477974005951 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 477974005952 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 477974005953 dimer interface [polypeptide binding]; other site 477974005954 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 477974005955 chaperonin families, type I and type II. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. There are 2 main chaperonin groups. The...; Region: chaperonin_type_I_II; cd00309 477974005956 thermosome, various subunits, archaeal; Region: thermosome_arch; TIGR02339 477974005957 ATP/Mg binding site [chemical binding]; other site 477974005958 ring oligomerisation interface [polypeptide binding]; other site 477974005959 hinge regions; other site 477974005960 stacking interactions; other site 477974005961 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 477974005962 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 477974005963 GTP-binding protein LepA; Provisional; Region: PRK05433 477974005964 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 477974005965 G1 box; other site 477974005966 putative GEF interaction site [polypeptide binding]; other site 477974005967 GTP/Mg2+ binding site [chemical binding]; other site 477974005968 Switch I region; other site 477974005969 G2 box; other site 477974005970 G3 box; other site 477974005971 Switch II region; other site 477974005972 G4 box; other site 477974005973 G5 box; other site 477974005974 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 477974005975 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 477974005976 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 477974005977 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 477974005978 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974005979 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 477974005980 stage II sporulation protein P; Region: spore_II_P; TIGR02867 477974005981 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 477974005982 Membrane protein of unknown function; Region: DUF360; pfam04020 477974005983 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 477974005984 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 477974005985 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 477974005986 Domain of unknown function DUF77; Region: DUF77; pfam01910 477974005987 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 477974005988 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 477974005989 Competence protein; Region: Competence; pfam03772 477974005990 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 477974005991 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 477974005992 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 477974005993 SLBB domain; Region: SLBB; pfam10531 477974005994 Helix-hairpin-helix motif; Region: HHH; pfam00633 477974005995 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 477974005996 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 477974005997 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 477974005998 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 477974005999 dimer interface [polypeptide binding]; other site 477974006000 PYR/PP interface [polypeptide binding]; other site 477974006001 TPP binding site [chemical binding]; other site 477974006002 substrate binding site [chemical binding]; other site 477974006003 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 477974006004 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 477974006005 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 477974006006 PYR/PP interface [polypeptide binding]; other site 477974006007 dimer interface [polypeptide binding]; other site 477974006008 TPP binding site [chemical binding]; other site 477974006009 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 477974006010 transketolase; Reviewed; Region: PRK05899 477974006011 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 477974006012 TPP-binding site [chemical binding]; other site 477974006013 dimer interface [polypeptide binding]; other site 477974006014 peptide chain release factor 2; Provisional; Region: PRK05589 477974006015 PCRF domain; Region: PCRF; pfam03462 477974006016 RF-1 domain; Region: RF-1; pfam00472 477974006017 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 477974006018 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 477974006019 ATP binding site [chemical binding]; other site 477974006020 putative Mg++ binding site [ion binding]; other site 477974006021 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 477974006022 SEC-C motif; Region: SEC-C; pfam02810 477974006023 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 477974006024 30S subunit binding site; other site 477974006025 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 477974006026 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 477974006027 GAF domain; Region: GAF_2; pfam13185 477974006028 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 477974006029 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974006030 metal binding site [ion binding]; metal-binding site 477974006031 active site 477974006032 I-site; other site 477974006033 S-adenosylmethionine synthetase; Validated; Region: PRK05250 477974006034 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 477974006035 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 477974006036 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 477974006037 Protein of unknown function (DUF1284); Region: DUF1284; cl01419 477974006038 BioY family; Region: BioY; pfam02632 477974006039 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 477974006040 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 477974006041 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 477974006042 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 477974006043 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 477974006044 active site 477974006045 substrate binding site [chemical binding]; other site 477974006046 metal binding site [ion binding]; metal-binding site 477974006047 Predicted membrane protein [Function unknown]; Region: COG2323 477974006048 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 477974006049 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 477974006050 active site 477974006051 tetramer interface; other site 477974006052 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 477974006053 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 477974006054 Mg++ binding site [ion binding]; other site 477974006055 putative catalytic motif [active] 477974006056 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 477974006057 Transcriptional regulator [Transcription]; Region: LytR; COG1316 477974006058 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 477974006059 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 477974006060 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 477974006061 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 477974006062 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 477974006063 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 477974006064 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 477974006065 HlyD family secretion protein; Region: HlyD_3; pfam13437 477974006066 Transcriptional regulators [Transcription]; Region: MarR; COG1846 477974006067 MarR family; Region: MarR; pfam01047 477974006068 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 477974006069 UbiA prenyltransferase family; Region: UbiA; pfam01040 477974006070 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 477974006071 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 477974006072 non-specific DNA binding site [nucleotide binding]; other site 477974006073 salt bridge; other site 477974006074 sequence-specific DNA binding site [nucleotide binding]; other site 477974006075 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 477974006076 putative active site [active] 477974006077 putative metal binding site [ion binding]; other site 477974006078 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 477974006079 putative active site [active] 477974006080 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 477974006081 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 477974006082 catalytic triad [active] 477974006083 putative active site [active] 477974006084 Bacterial Ig-like domain; Region: Big_5; pfam13205 477974006085 S-layer homology domain; Region: SLH; pfam00395 477974006086 S-layer homology domain; Region: SLH; pfam00395 477974006087 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 477974006088 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 477974006089 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 477974006090 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cd09852 477974006091 putative active site [active] 477974006092 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 477974006093 S-layer homology domain; Region: SLH; pfam00395 477974006094 S-layer homology domain; Region: SLH; pfam00395 477974006095 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974006096 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 477974006097 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974006098 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 477974006099 putative active site [active] 477974006100 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 477974006101 PemK-like protein; Region: PemK; pfam02452 477974006102 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 477974006103 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974006104 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 477974006105 DNA binding residues [nucleotide binding] 477974006106 Putative zinc-finger; Region: zf-HC2; pfam13490 477974006107 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 477974006108 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 477974006109 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2402 477974006110 putative active site [active] 477974006111 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 477974006112 active site 477974006113 catalytic triad [active] 477974006114 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 477974006115 S-layer homology domain; Region: SLH; pfam00395 477974006116 S-layer homology domain; Region: SLH; pfam00395 477974006117 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 477974006118 putative active site [active] 477974006119 homotetrameric interface [polypeptide binding]; other site 477974006120 metal binding site [ion binding]; metal-binding site 477974006121 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 477974006122 Uncharacterized conserved protein [Function unknown]; Region: COG1751 477974006123 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 477974006124 rod shape-determining protein Mbl; Provisional; Region: PRK13928 477974006125 MreB and similar proteins; Region: MreB_like; cd10225 477974006126 nucleotide binding site [chemical binding]; other site 477974006127 Mg binding site [ion binding]; other site 477974006128 putative protofilament interaction site [polypeptide binding]; other site 477974006129 RodZ interaction site [polypeptide binding]; other site 477974006130 Stage III sporulation protein D; Region: SpoIIID; pfam12116 477974006131 Stage II sporulation protein; Region: SpoIID; pfam08486 477974006132 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 477974006133 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 477974006134 acyl-activating enzyme (AAE) consensus motif; other site 477974006135 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 477974006136 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 477974006137 gamma subunit interface [polypeptide binding]; other site 477974006138 epsilon subunit interface [polypeptide binding]; other site 477974006139 LBP interface [polypeptide binding]; other site 477974006140 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 477974006141 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 477974006142 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 477974006143 alpha subunit interaction interface [polypeptide binding]; other site 477974006144 Walker A motif; other site 477974006145 ATP binding site [chemical binding]; other site 477974006146 Walker B motif; other site 477974006147 inhibitor binding site; inhibition site 477974006148 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 477974006149 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 477974006150 core domain interface [polypeptide binding]; other site 477974006151 delta subunit interface [polypeptide binding]; other site 477974006152 epsilon subunit interface [polypeptide binding]; other site 477974006153 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 477974006154 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 477974006155 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 477974006156 beta subunit interaction interface [polypeptide binding]; other site 477974006157 Walker A motif; other site 477974006158 ATP binding site [chemical binding]; other site 477974006159 Walker B motif; other site 477974006160 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 477974006161 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 477974006162 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 477974006163 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 477974006164 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 477974006165 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 477974006166 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 477974006167 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 477974006168 ATP synthase I chain; Region: ATP_synt_I; cl09170 477974006169 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 477974006170 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 477974006171 active site 477974006172 homodimer interface [polypeptide binding]; other site 477974006173 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 477974006174 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 477974006175 dimer interface [polypeptide binding]; other site 477974006176 active site 477974006177 glycine-pyridoxal phosphate binding site [chemical binding]; other site 477974006178 folate binding site [chemical binding]; other site 477974006179 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 477974006180 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 477974006181 Low molecular weight phosphatase family; Region: LMWPc; cd00115 477974006182 active site 477974006183 Predicted membrane protein [Function unknown]; Region: COG1971 477974006184 Domain of unknown function DUF; Region: DUF204; pfam02659 477974006185 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 477974006186 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 477974006187 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 477974006188 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 477974006189 S-adenosylmethionine binding site [chemical binding]; other site 477974006190 Transposase IS200 like; Region: Y1_Tnp; pfam01797 477974006191 peptide chain release factor 1; Validated; Region: prfA; PRK00591 477974006192 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cl09835 477974006193 This domain is found in peptide chain release factors; Region: PCRF; smart00937 477974006194 RF-1 domain; Region: RF-1; pfam00472 477974006195 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 477974006196 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 477974006197 amphi-Trp domain; Region: amphi-Trp; TIGR04354 477974006198 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 477974006199 iron-sulfur cluster [ion binding]; other site 477974006200 [2Fe-2S] cluster binding site [ion binding]; other site 477974006201 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 477974006202 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 477974006203 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 477974006204 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 477974006205 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 477974006206 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 477974006207 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 477974006208 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 477974006209 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 477974006210 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 477974006211 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 477974006212 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 477974006213 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 477974006214 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 477974006215 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 477974006216 Radical SAM superfamily; Region: Radical_SAM; pfam04055 477974006217 FeS/SAM binding site; other site 477974006218 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 477974006219 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 477974006220 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 477974006221 Peptidase family M23; Region: Peptidase_M23; pfam01551 477974006222 transcription termination factor Rho; Provisional; Region: rho; PRK09376 477974006223 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 477974006224 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 477974006225 RNA binding site [nucleotide binding]; other site 477974006226 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 477974006227 multimer interface [polypeptide binding]; other site 477974006228 Walker A motif; other site 477974006229 ATP binding site [chemical binding]; other site 477974006230 Walker B motif; other site 477974006231 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 477974006232 active site 477974006233 intersubunit interactions; other site 477974006234 catalytic residue [active] 477974006235 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 477974006236 intersubunit interface [polypeptide binding]; other site 477974006237 active site 477974006238 zinc binding site [ion binding]; other site 477974006239 Na+ binding site [ion binding]; other site 477974006240 Response regulator receiver domain; Region: Response_reg; pfam00072 477974006241 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 477974006242 active site 477974006243 phosphorylation site [posttranslational modification] 477974006244 intermolecular recognition site; other site 477974006245 dimerization interface [polypeptide binding]; other site 477974006246 Yip1 domain; Region: Yip1; pfam04893 477974006247 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 477974006248 tandem repeat interface [polypeptide binding]; other site 477974006249 oligomer interface [polypeptide binding]; other site 477974006250 active site residues [active] 477974006251 CTP synthetase; Validated; Region: pyrG; PRK05380 477974006252 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 477974006253 Catalytic site [active] 477974006254 active site 477974006255 UTP binding site [chemical binding]; other site 477974006256 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 477974006257 active site 477974006258 putative oxyanion hole; other site 477974006259 catalytic triad [active] 477974006260 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 477974006261 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 477974006262 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 477974006263 active site 477974006264 HIGH motif; other site 477974006265 KMSK motif region; other site 477974006266 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 477974006267 tRNA binding surface [nucleotide binding]; other site 477974006268 anticodon binding site; other site 477974006269 hypothetical protein; Validated; Region: PRK07682 477974006270 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 477974006271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974006272 homodimer interface [polypeptide binding]; other site 477974006273 catalytic residue [active] 477974006274 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 477974006275 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 477974006276 AsnC family; Region: AsnC_trans_reg; pfam01037 477974006277 DNA methylase; Region: N6_N4_Mtase; cl17433 477974006278 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 477974006279 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 477974006280 S-adenosylmethionine binding site [chemical binding]; other site 477974006281 germination protein YpeB; Region: spore_YpeB; TIGR02889 477974006282 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 477974006283 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 477974006284 Active_site [active] 477974006285 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 477974006286 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 477974006287 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 477974006288 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 477974006289 catalytic triad [active] 477974006290 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 477974006291 DsrC like protein; Region: DsrC; pfam04358 477974006292 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 477974006293 Cysteine-rich domain; Region: CCG; pfam02754 477974006294 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 477974006295 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 477974006296 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 477974006297 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974006298 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 477974006299 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 477974006300 HEAT-like repeat; Region: HEAT_EZ; pfam13513 477974006301 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 477974006302 TPR motif; other site 477974006303 TPR repeat; Region: TPR_11; pfam13414 477974006304 binding surface 477974006305 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 477974006306 binding surface 477974006307 TPR motif; other site 477974006308 TPR repeat; Region: TPR_11; pfam13414 477974006309 Tetratricopeptide repeat; Region: TPR_16; pfam13432 477974006310 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 477974006311 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 477974006312 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 477974006313 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 477974006314 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 477974006315 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 477974006316 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 477974006317 hinge; other site 477974006318 active site 477974006319 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 477974006320 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 477974006321 binding surface 477974006322 TPR motif; other site 477974006323 TPR repeat; Region: TPR_11; pfam13414 477974006324 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 477974006325 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 477974006326 G5 domain; Region: G5; pfam07501 477974006327 Peptidase family M23; Region: Peptidase_M23; pfam01551 477974006328 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 477974006329 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 477974006330 FeS/SAM binding site; other site 477974006331 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 477974006332 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 477974006333 FOG: CBS domain [General function prediction only]; Region: COG0517 477974006334 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 477974006335 FOG: CBS domain [General function prediction only]; Region: COG0517 477974006336 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 477974006337 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 477974006338 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 477974006339 GDP-binding site [chemical binding]; other site 477974006340 ACT binding site; other site 477974006341 IMP binding site; other site 477974006342 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 477974006343 replicative DNA helicase; Region: DnaB; TIGR00665 477974006344 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 477974006345 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 477974006346 Walker A motif; other site 477974006347 ATP binding site [chemical binding]; other site 477974006348 Walker B motif; other site 477974006349 DNA binding loops [nucleotide binding] 477974006350 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 477974006351 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 477974006352 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 477974006353 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 477974006354 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 477974006355 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 477974006356 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 477974006357 dimer interface [polypeptide binding]; other site 477974006358 ssDNA binding site [nucleotide binding]; other site 477974006359 tetramer (dimer of dimers) interface [polypeptide binding]; other site 477974006360 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 477974006361 GTP-binding protein YchF; Reviewed; Region: PRK09601 477974006362 YchF GTPase; Region: YchF; cd01900 477974006363 Switch II region; other site 477974006364 G3 box; other site 477974006365 GTP/Mg2+ binding site [chemical binding]; other site 477974006366 G4 box; other site 477974006367 G5 box; other site 477974006368 Protein of unknown function (DUF933); Region: YchF-GTPase_C; pfam06071 477974006369 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 477974006370 Colicin V production protein; Region: Colicin_V; pfam02674 477974006371 Uncharacterized membrane protein [Function unknown]; Region: COG3949 477974006372 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 477974006373 Uncharacterized protein family (UPF0180); Region: UPF0180; cl04214 477974006374 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 477974006375 active site 477974006376 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 477974006377 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 477974006378 hypothetical protein; Provisional; Region: PRK04194 477974006379 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 477974006380 ParB-like nuclease domain; Region: ParB; smart00470 477974006381 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 477974006382 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 477974006383 P-loop; other site 477974006384 Magnesium ion binding site [ion binding]; other site 477974006385 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 477974006386 Magnesium ion binding site [ion binding]; other site 477974006387 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 477974006388 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 477974006389 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 477974006390 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 477974006391 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 477974006392 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 477974006393 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 477974006394 trmE is a tRNA modification GTPase; Region: trmE; cd04164 477974006395 G1 box; other site 477974006396 GTP/Mg2+ binding site [chemical binding]; other site 477974006397 Switch I region; other site 477974006398 G2 box; other site 477974006399 Switch II region; other site 477974006400 G3 box; other site 477974006401 G4 box; other site 477974006402 G5 box; other site 477974006403 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 477974006404 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 477974006405 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 477974006406 G-X-X-G motif; other site 477974006407 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 477974006408 RxxxH motif; other site 477974006409 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 477974006410 Haemolytic domain; Region: Haemolytic; pfam01809 477974006411 Ribonuclease P; Region: Ribonuclease_P; cl00457 477974006412 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 477974006413 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782