-- dump date 20140619_042630 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1341692000001 TOBE domain; Region: TOBE; cl01440 1341692000002 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692000003 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1341692000004 OsmC-like protein; Region: OsmC; pfam02566 1341692000005 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1341692000006 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1341692000007 putative ligand binding site [chemical binding]; other site 1341692000008 putative NAD binding site [chemical binding]; other site 1341692000009 catalytic site [active] 1341692000010 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1341692000011 metal binding site [ion binding]; metal-binding site 1341692000012 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1341692000013 AAA ATPase domain; Region: AAA_16; pfam13191 1341692000014 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 1341692000015 DNA binding residues [nucleotide binding] 1341692000016 dimerization interface [polypeptide binding]; other site 1341692000017 peptidase T; Region: peptidase-T; TIGR01882 1341692000018 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1341692000019 metal binding site [ion binding]; metal-binding site 1341692000020 dimer interface [polypeptide binding]; other site 1341692000021 inner membrane transporter YjeM; Provisional; Region: PRK15238 1341692000022 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1341692000023 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1341692000024 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1341692000025 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 1341692000026 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1341692000027 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1341692000028 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1341692000029 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1341692000030 Predicted permeases [General function prediction only]; Region: COG0679 1341692000031 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 1341692000032 non-specific DNA binding site [nucleotide binding]; other site 1341692000033 salt bridge; other site 1341692000034 sequence-specific DNA binding site [nucleotide binding]; other site 1341692000035 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1341692000036 MarR family; Region: MarR; pfam01047 1341692000037 MarR family; Region: MarR_2; cl17246 1341692000038 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1341692000039 metal binding site 2 [ion binding]; metal-binding site 1341692000040 putative DNA binding helix; other site 1341692000041 metal binding site 1 [ion binding]; metal-binding site 1341692000042 dimer interface [polypeptide binding]; other site 1341692000043 structural Zn2+ binding site [ion binding]; other site 1341692000044 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1341692000045 EamA-like transporter family; Region: EamA; pfam00892 1341692000046 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1341692000047 EamA-like transporter family; Region: EamA; pfam00892 1341692000048 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 1341692000049 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692000050 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 1341692000051 active site 1341692000052 phosphorylation site [posttranslational modification] 1341692000053 intermolecular recognition site; other site 1341692000054 dimerization interface [polypeptide binding]; other site 1341692000055 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 1341692000056 DNA binding site [nucleotide binding] 1341692000057 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692000058 HAMP domain; Region: HAMP; pfam00672 1341692000059 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 1341692000060 dimer interface [polypeptide binding]; other site 1341692000061 phosphorylation site [posttranslational modification] 1341692000062 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 1341692000063 ATP binding site [chemical binding]; other site 1341692000064 Mg2+ binding site [ion binding]; other site 1341692000065 G-X-G motif; other site 1341692000066 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1341692000067 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1341692000068 Rubredoxin; Region: Rubredoxin; pfam00301 1341692000069 iron binding site [ion binding]; other site 1341692000070 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1341692000071 Ferritin-like domain; Region: Ferritin; pfam00210 1341692000072 ferroxidase diiron center [ion binding]; other site 1341692000073 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1341692000074 DNA-binding site [nucleotide binding]; DNA binding site 1341692000075 RNA-binding motif; other site 1341692000076 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 1341692000077 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1341692000078 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1341692000079 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1341692000080 putative NADH binding site [chemical binding]; other site 1341692000081 putative active site [active] 1341692000082 nudix motif; other site 1341692000083 putative metal binding site [ion binding]; other site 1341692000084 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 1341692000085 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1341692000086 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1341692000087 NAD binding site [chemical binding]; other site 1341692000088 catalytic Zn binding site [ion binding]; other site 1341692000089 structural Zn binding site [ion binding]; other site 1341692000090 Coat F domain; Region: Coat_F; cl17715 1341692000091 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 1341692000092 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1341692000093 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1341692000094 DNA-binding site [nucleotide binding]; DNA binding site 1341692000095 RNA-binding motif; other site 1341692000096 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1341692000097 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 1341692000098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692000099 homodimer interface [polypeptide binding]; other site 1341692000100 catalytic residue [active] 1341692000101 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1341692000102 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692000103 DNA-binding site [nucleotide binding]; DNA binding site 1341692000104 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 1341692000105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692000106 homodimer interface [polypeptide binding]; other site 1341692000107 catalytic residue [active] 1341692000108 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 1341692000109 Peptidase family M50; Region: Peptidase_M50; pfam02163 1341692000110 active site 1341692000111 putative substrate binding region [chemical binding]; other site 1341692000112 Reovirus sigma C capsid protein; Region: Reo_sigmaC; pfam04582 1341692000113 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692000114 HAMP domain; Region: HAMP; pfam00672 1341692000115 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 1341692000116 dimer interface [polypeptide binding]; other site 1341692000117 phosphorylation site [posttranslational modification] 1341692000118 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 1341692000119 ATP binding site [chemical binding]; other site 1341692000120 Mg2+ binding site [ion binding]; other site 1341692000121 G-X-G motif; other site 1341692000122 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692000123 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 1341692000124 active site 1341692000125 phosphorylation site [posttranslational modification] 1341692000126 intermolecular recognition site; other site 1341692000127 dimerization interface [polypeptide binding]; other site 1341692000128 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 1341692000129 DNA binding site [nucleotide binding] 1341692000130 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1341692000131 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692000132 Walker A/P-loop; other site 1341692000133 ATP binding site [chemical binding]; other site 1341692000134 Q-loop/lid; other site 1341692000135 ABC transporter signature motif; other site 1341692000136 Walker B; other site 1341692000137 D-loop; other site 1341692000138 H-loop/switch region; other site 1341692000139 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692000140 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1341692000141 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692000142 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 1341692000143 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1341692000144 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692000145 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 1341692000146 putative ADP-binding pocket [chemical binding]; other site 1341692000147 Manganese catalase-like protein, ferritin-like diiron-binding domain; Region: Mn_catalase_like; cd07908 1341692000148 dinuclear metal binding motif [ion binding]; other site 1341692000149 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 1341692000150 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1341692000151 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1341692000152 ligand binding site [chemical binding]; other site 1341692000153 flagellar motor protein MotA; Validated; Region: PRK08124 1341692000154 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1341692000155 FIST N domain; Region: FIST; pfam08495 1341692000156 FIST C domain; Region: FIST_C; pfam10442 1341692000157 Response regulator receiver domain; Region: Response_reg; pfam00072 1341692000158 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 1341692000159 active site 1341692000160 phosphorylation site [posttranslational modification] 1341692000161 intermolecular recognition site; other site 1341692000162 dimerization interface [polypeptide binding]; other site 1341692000163 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692000164 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 1341692000165 dimer interface [polypeptide binding]; other site 1341692000166 phosphorylation site [posttranslational modification] 1341692000167 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 1341692000168 ATP binding site [chemical binding]; other site 1341692000169 Mg2+ binding site [ion binding]; other site 1341692000170 G-X-G motif; other site 1341692000171 heat shock protein 90; Provisional; Region: PRK05218 1341692000172 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 1341692000173 ATP binding site [chemical binding]; other site 1341692000174 Mg2+ binding site [ion binding]; other site 1341692000175 G-X-G motif; other site 1341692000176 Amino acid permease; Region: AA_permease_2; pfam13520 1341692000177 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692000178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692000179 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 1341692000180 dimerization interface [polypeptide binding]; other site 1341692000181 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692000182 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 1341692000183 active site 1341692000184 phosphorylation site [posttranslational modification] 1341692000185 intermolecular recognition site; other site 1341692000186 dimerization interface [polypeptide binding]; other site 1341692000187 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 1341692000188 DNA binding site [nucleotide binding] 1341692000189 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692000190 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 1341692000191 dimerization interface [polypeptide binding]; other site 1341692000192 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 1341692000193 dimer interface [polypeptide binding]; other site 1341692000194 phosphorylation site [posttranslational modification] 1341692000195 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 1341692000196 ATP binding site [chemical binding]; other site 1341692000197 Mg2+ binding site [ion binding]; other site 1341692000198 G-X-G motif; other site 1341692000199 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 1341692000200 putative deacylase active site [active] 1341692000201 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1341692000202 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692000203 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_23; cd09011 1341692000204 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1341692000205 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 1341692000206 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1341692000207 Interdomain contacts; other site 1341692000208 Cytokine receptor motif; other site 1341692000209 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 1341692000210 active site 1341692000211 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1341692000212 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1341692000213 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692000214 DNA-binding site [nucleotide binding]; DNA binding site 1341692000215 FCD domain; Region: FCD; pfam07729 1341692000216 LemA family; Region: LemA; cl00742 1341692000217 Repair protein; Region: Repair_PSII; pfam04536 1341692000218 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 1341692000219 DNA binding site [nucleotide binding] 1341692000220 active site 1341692000221 Int/Topo IB signature motif; other site 1341692000222 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1341692000223 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1341692000224 DNA binding residues [nucleotide binding] 1341692000225 putative dimer interface [polypeptide binding]; other site 1341692000226 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 1341692000227 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1341692000228 NADP binding site [chemical binding]; other site 1341692000229 putative substrate binding site [chemical binding]; other site 1341692000230 active site 1341692000231 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692000232 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1341692000233 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 1341692000234 ATP binding site [chemical binding]; other site 1341692000235 Mg2+ binding site [ion binding]; other site 1341692000236 G-X-G motif; other site 1341692000237 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 1341692000238 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 1341692000239 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1341692000240 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1341692000241 synthetase active site [active] 1341692000242 NTP binding site [chemical binding]; other site 1341692000243 metal binding site [ion binding]; metal-binding site 1341692000244 Cache domain; Region: Cache_1; pfam02743 1341692000245 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 1341692000246 dimerization interface [polypeptide binding]; other site 1341692000247 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692000248 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692000249 dimer interface [polypeptide binding]; other site 1341692000250 putative CheW interface [polypeptide binding]; other site 1341692000251 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1341692000252 short chain dehydrogenase; Provisional; Region: PRK06701 1341692000253 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1341692000254 NAD binding site [chemical binding]; other site 1341692000255 metal binding site [ion binding]; metal-binding site 1341692000256 active site 1341692000257 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 1341692000258 FMN binding site [chemical binding]; other site 1341692000259 dimer interface [polypeptide binding]; other site 1341692000260 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 1341692000261 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 1341692000262 molybdopterin cofactor binding site; other site 1341692000263 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_CT_Formate-Dh_H; cd02790 1341692000264 molybdopterin cofactor binding site; other site 1341692000265 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 1341692000266 ThiS family; Region: ThiS; pfam02597 1341692000267 charged pocket; other site 1341692000268 hydrophobic patch; other site 1341692000269 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 1341692000270 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 1341692000271 ATP binding site [chemical binding]; other site 1341692000272 substrate interface [chemical binding]; other site 1341692000273 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1341692000274 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1341692000275 Walker A/P-loop; other site 1341692000276 ATP binding site [chemical binding]; other site 1341692000277 Q-loop/lid; other site 1341692000278 ABC transporter signature motif; other site 1341692000279 Walker B; other site 1341692000280 D-loop; other site 1341692000281 H-loop/switch region; other site 1341692000282 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1341692000283 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 1341692000284 ABC-ATPase subunit interface; other site 1341692000285 dimer interface [polypeptide binding]; other site 1341692000286 putative PBP binding regions; other site 1341692000287 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 1341692000288 putative ligand binding residues [chemical binding]; other site 1341692000289 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1341692000290 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 1341692000291 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 1341692000292 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 1341692000293 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 1341692000294 PAS domain; Region: PAS; smart00091 1341692000295 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 1341692000296 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1341692000297 Walker A motif; other site 1341692000298 ATP binding site [chemical binding]; other site 1341692000299 Walker B motif; other site 1341692000300 arginine finger; other site 1341692000301 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1341692000302 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1341692000303 PAS domain; Region: PAS; smart00091 1341692000304 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 1341692000305 Walker A motif; other site 1341692000306 ATP binding site [chemical binding]; other site 1341692000307 Walker B motif; other site 1341692000308 arginine finger; other site 1341692000309 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1341692000310 PBP superfamily domain; Region: PBP_like_2; pfam12849 1341692000311 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1341692000312 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 1341692000313 dimer interface [polypeptide binding]; other site 1341692000314 conserved gate region; other site 1341692000315 putative PBP binding loops; other site 1341692000316 ABC-ATPase subunit interface; other site 1341692000317 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1341692000318 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692000319 Walker A/P-loop; other site 1341692000320 ATP binding site [chemical binding]; other site 1341692000321 Q-loop/lid; other site 1341692000322 ABC transporter signature motif; other site 1341692000323 Walker B; other site 1341692000324 D-loop; other site 1341692000325 H-loop/switch region; other site 1341692000326 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1341692000327 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 1341692000328 dimer interface [polypeptide binding]; other site 1341692000329 putative functional site; other site 1341692000330 putative MPT binding site; other site 1341692000331 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 1341692000332 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 1341692000333 dimer interface [polypeptide binding]; other site 1341692000334 putative functional site; other site 1341692000335 putative MPT binding site; other site 1341692000336 PBP superfamily domain; Region: PBP_like; pfam12727 1341692000337 MOSC domain; Region: MOSC; pfam03473 1341692000338 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 1341692000339 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 1341692000340 Walker A motif; other site 1341692000341 ATP binding site [chemical binding]; other site 1341692000342 Walker B motif; other site 1341692000343 arginine finger; other site 1341692000344 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1341692000345 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 1341692000346 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 1341692000347 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 1341692000348 ThiS family; Region: ThiS; pfam02597 1341692000349 charged pocket; other site 1341692000350 hydrophobic patch; other site 1341692000351 hypothetical protein; Provisional; Region: PRK08328 1341692000352 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 1341692000353 ATP binding site [chemical binding]; other site 1341692000354 substrate interface [chemical binding]; other site 1341692000355 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 1341692000356 PAS domain; Region: PAS; smart00091 1341692000357 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 1341692000358 Walker A motif; other site 1341692000359 ATP binding site [chemical binding]; other site 1341692000360 Walker B motif; other site 1341692000361 arginine finger; other site 1341692000362 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1341692000363 Helix-turn-helix domain; Region: HTH_17; pfam12728 1341692000364 Predicted membrane protein [Function unknown]; Region: COG2510 1341692000365 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1341692000366 Predicted membrane protein [Function unknown]; Region: COG2510 1341692000367 endonuclease IV; Provisional; Region: PRK01060 1341692000368 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1341692000369 AP (apurinic/apyrimidinic) site pocket; other site 1341692000370 DNA interaction; other site 1341692000371 Metal-binding active site; metal-binding site 1341692000372 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1341692000373 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1341692000374 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1341692000375 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1341692000376 Iron only hydrogenase large subunit, C-terminal domain [General function prediction only]; Region: COG4624 1341692000377 4Fe-4S binding domain; Region: Fer4; pfam00037 1341692000378 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1341692000379 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1341692000380 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 1341692000381 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1341692000382 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1341692000383 active site 1341692000384 metal binding site [ion binding]; metal-binding site 1341692000385 DNA binding site [nucleotide binding] 1341692000386 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1341692000387 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1341692000388 AAA domain; Region: AAA_23; pfam13476 1341692000389 Walker A/P-loop; other site 1341692000390 ATP binding site [chemical binding]; other site 1341692000391 Q-loop/lid; other site 1341692000392 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1341692000393 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692000394 ABC transporter signature motif; other site 1341692000395 Walker B; other site 1341692000396 D-loop; other site 1341692000397 H-loop/switch region; other site 1341692000398 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1341692000399 Ligand binding site [chemical binding]; other site 1341692000400 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1341692000401 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1341692000402 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1341692000403 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1341692000404 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1341692000405 FAD binding domain; Region: FAD_binding_4; pfam01565 1341692000406 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1341692000407 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 1341692000408 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1341692000409 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1341692000410 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 1341692000411 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1341692000412 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692000413 dimer interface [polypeptide binding]; other site 1341692000414 putative CheW interface [polypeptide binding]; other site 1341692000415 Membrane transport protein; Region: Mem_trans; pfam03547 1341692000416 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1341692000417 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1341692000418 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1341692000419 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1341692000420 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1341692000421 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1341692000422 PYR/PP interface [polypeptide binding]; other site 1341692000423 dimer interface [polypeptide binding]; other site 1341692000424 TPP binding site [chemical binding]; other site 1341692000425 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1341692000426 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 1341692000427 TPP-binding site [chemical binding]; other site 1341692000428 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1341692000429 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1341692000430 putative valine binding site [chemical binding]; other site 1341692000431 dimer interface [polypeptide binding]; other site 1341692000432 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1341692000433 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1341692000434 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1341692000435 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1341692000436 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1341692000437 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1341692000438 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1341692000439 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1341692000440 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1341692000441 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 1341692000442 inhibitor-cofactor binding pocket; inhibition site 1341692000443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692000444 catalytic residue [active] 1341692000445 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1341692000446 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1341692000447 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1341692000448 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 1341692000449 carboxyltransferase (CT) interaction site; other site 1341692000450 biotinylation site [posttranslational modification]; other site 1341692000451 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1341692000452 putative active site [active] 1341692000453 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 1341692000454 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1341692000455 Na binding site [ion binding]; other site 1341692000456 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 1341692000457 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 1341692000458 MFS/sugar transport protein; Region: MFS_2; pfam13347 1341692000459 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1341692000460 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1341692000461 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 1341692000462 B12 binding site [chemical binding]; other site 1341692000463 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1341692000464 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1341692000465 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1341692000466 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1341692000467 active site 1341692000468 phosphorylation site [posttranslational modification] 1341692000469 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1341692000470 active site 1341692000471 P-loop; other site 1341692000472 phosphorylation site [posttranslational modification] 1341692000473 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1341692000474 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1341692000475 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1341692000476 putative substrate binding site [chemical binding]; other site 1341692000477 putative ATP binding site [chemical binding]; other site 1341692000478 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1341692000479 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1341692000480 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1341692000481 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 1341692000482 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1341692000483 substrate binding pocket [chemical binding]; other site 1341692000484 dimer interface [polypeptide binding]; other site 1341692000485 inhibitor binding site; inhibition site 1341692000486 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 1341692000487 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 1341692000488 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 1341692000489 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1341692000490 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 1341692000491 B12 binding site [chemical binding]; other site 1341692000492 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1341692000493 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 1341692000494 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 1341692000495 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1341692000496 substrate binding pocket [chemical binding]; other site 1341692000497 dimer interface [polypeptide binding]; other site 1341692000498 inhibitor binding site; inhibition site 1341692000499 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1341692000500 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 1341692000501 B12 binding site [chemical binding]; other site 1341692000502 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1341692000503 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1341692000504 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 1341692000505 catalytic loop [active] 1341692000506 iron binding site [ion binding]; other site 1341692000507 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1341692000508 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 1341692000509 B12 binding site [chemical binding]; other site 1341692000510 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1341692000511 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1341692000512 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1341692000513 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1341692000514 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 1341692000515 Response regulator receiver domain; Region: Response_reg; pfam00072 1341692000516 active site 1341692000517 phosphorylation site [posttranslational modification] 1341692000518 intermolecular recognition site; other site 1341692000519 dimerization interface [polypeptide binding]; other site 1341692000520 YcbB domain; Region: YcbB; pfam08664 1341692000521 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692000522 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 1341692000523 ATP binding site [chemical binding]; other site 1341692000524 G-X-G motif; other site 1341692000525 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1341692000526 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1341692000527 Amino acid permease; Region: AA_permease_2; pfam13520 1341692000528 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1341692000529 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1341692000530 nucleotide binding site [chemical binding]; other site 1341692000531 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1341692000532 active site 1341692000533 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1341692000534 nucleophile elbow; other site 1341692000535 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14536 1341692000536 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1341692000537 active site 1341692000538 HIGH motif; other site 1341692000539 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1341692000540 KMSKS motif; other site 1341692000541 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1341692000542 tRNA binding surface [nucleotide binding]; other site 1341692000543 anticodon binding site; other site 1341692000544 Ion channel; Region: Ion_trans_2; pfam07885 1341692000545 HutD; Region: HutD; pfam05962 1341692000546 CHASE4 domain; Region: CHASE4; pfam05228 1341692000547 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692000548 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692000549 metal binding site [ion binding]; metal-binding site 1341692000550 active site 1341692000551 I-site; other site 1341692000552 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1341692000553 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692000554 Zn2+ binding site [ion binding]; other site 1341692000555 Mg2+ binding site [ion binding]; other site 1341692000556 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 1341692000557 Predicted membrane protein [Function unknown]; Region: COG2323 1341692000558 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 1341692000559 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 1341692000560 stage V sporulation protein AD; Provisional; Region: PRK12404 1341692000561 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 1341692000562 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 1341692000563 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 1341692000564 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1341692000565 classical (c) SDRs; Region: SDR_c; cd05233 1341692000566 NAD(P) binding site [chemical binding]; other site 1341692000567 active site 1341692000568 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 1341692000569 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 1341692000570 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1341692000571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 1341692000572 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1341692000573 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 1341692000574 active site 1341692000575 DNA binding site [nucleotide binding] 1341692000576 Int/Topo IB signature motif; other site 1341692000577 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 1341692000578 LexA repressor; Validated; Region: PRK00215 1341692000579 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 1341692000580 putative DNA binding site [nucleotide binding]; other site 1341692000581 putative Zn2+ binding site [ion binding]; other site 1341692000582 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 1341692000583 Catalytic site [active] 1341692000584 DNA polymerase IV; Reviewed; Region: PRK03103 1341692000585 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1341692000586 active site 1341692000587 DNA binding site [nucleotide binding] 1341692000588 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1341692000589 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 1341692000590 putative DNA binding site [nucleotide binding]; other site 1341692000591 putative Zn2+ binding site [ion binding]; other site 1341692000592 AsnC family; Region: AsnC_trans_reg; pfam01037 1341692000593 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1341692000594 MtaA_CmuA_like family. MtaA/CmuA, also MtsA, or methyltransferase 2 (MT2) MT2-A and MT2-M isozymes, are methylcobamide:Coenzyme M methyltransferases, which play a role in metabolic pathways of methane formation from various substrates, such as methylated...; Region: Mta_CmuA_like; cd03307 1341692000595 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1341692000596 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 1341692000597 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 1341692000598 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 1341692000599 B12 binding site [chemical binding]; other site 1341692000600 cobalt ligand [ion binding]; other site 1341692000601 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1341692000602 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 1341692000603 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 1341692000604 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1341692000605 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 1341692000606 benzoate transport; Region: 2A0115; TIGR00895 1341692000607 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 1341692000608 putative substrate translocation pore; other site 1341692000609 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 1341692000610 benzoate transport; Region: 2A0115; TIGR00895 1341692000611 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 1341692000612 putative substrate translocation pore; other site 1341692000613 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 1341692000614 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 1341692000615 putative deacylase active site [active] 1341692000616 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1341692000617 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1341692000618 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1341692000619 active site 1341692000620 FMN binding site [chemical binding]; other site 1341692000621 substrate binding site [chemical binding]; other site 1341692000622 putative catalytic residue [active] 1341692000623 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1341692000624 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 1341692000625 Aluminium resistance protein; Region: Alum_res; pfam06838 1341692000626 bacterial Hfq-like; Region: Hfq; cd01716 1341692000627 hexamer interface [polypeptide binding]; other site 1341692000628 Sm1 motif; other site 1341692000629 RNA binding site [nucleotide binding]; other site 1341692000630 Sm2 motif; other site 1341692000631 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1341692000632 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1341692000633 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1341692000634 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1341692000635 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 1341692000636 ATP binding site [chemical binding]; other site 1341692000637 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1341692000638 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1341692000639 MutS domain I; Region: MutS_I; pfam01624 1341692000640 MutS domain II; Region: MutS_II; pfam05188 1341692000641 MutS domain III; Region: MutS_III; pfam05192 1341692000642 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1341692000643 Walker A/P-loop; other site 1341692000644 ATP binding site [chemical binding]; other site 1341692000645 Q-loop/lid; other site 1341692000646 ABC transporter signature motif; other site 1341692000647 Walker B; other site 1341692000648 D-loop; other site 1341692000649 H-loop/switch region; other site 1341692000650 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 1341692000651 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1341692000652 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 1341692000653 FeS/SAM binding site; other site 1341692000654 TRAM domain; Region: TRAM; pfam01938 1341692000655 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1341692000656 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 1341692000657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692000658 homodimer interface [polypeptide binding]; other site 1341692000659 catalytic residue [active] 1341692000660 aspartate aminotransferase; Provisional; Region: PRK07568 1341692000661 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 1341692000662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692000663 homodimer interface [polypeptide binding]; other site 1341692000664 catalytic residue [active] 1341692000665 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1341692000666 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692000667 Coenzyme A binding pocket [chemical binding]; other site 1341692000668 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 1341692000669 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 1341692000670 LytB protein; Region: LYTB; cl00507 1341692000671 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 1341692000672 RNA binding site [nucleotide binding]; other site 1341692000673 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 1341692000674 RNA binding site [nucleotide binding]; other site 1341692000675 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 1341692000676 RNA binding site [nucleotide binding]; other site 1341692000677 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 1341692000678 RNA binding site [nucleotide binding]; other site 1341692000679 cytidylate kinase; Provisional; Region: cmk; PRK00023 1341692000680 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 1341692000681 CMP-binding site; other site 1341692000682 The sites determining sugar specificity; other site 1341692000683 HI0933-like protein; Region: HI0933_like; pfam03486 1341692000684 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1341692000685 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1341692000686 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1341692000687 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1341692000688 putative active site [active] 1341692000689 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1341692000690 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 1341692000691 RNA binding surface [nucleotide binding]; other site 1341692000692 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1341692000693 active site 1341692000694 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1341692000695 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 1341692000696 DXD motif; other site 1341692000697 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 1341692000698 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 1341692000699 CPxP motif; other site 1341692000700 DsrE/DsrF-like family; Region: DrsE; pfam02635 1341692000701 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1341692000702 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1341692000703 putative active site [active] 1341692000704 catalytic triad [active] 1341692000705 dimer interface [polypeptide binding]; other site 1341692000706 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1341692000707 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 1341692000708 putative ATP binding site [chemical binding]; other site 1341692000709 putative substrate interface [chemical binding]; other site 1341692000710 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1341692000711 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1341692000712 GTP binding site; other site 1341692000713 formimidoylglutamase; Provisional; Region: PRK13775 1341692000714 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1341692000715 putative active site [active] 1341692000716 putative metal binding site [ion binding]; other site 1341692000717 Cache domain; Region: Cache_1; pfam02743 1341692000718 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 1341692000719 dimerization interface [polypeptide binding]; other site 1341692000720 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692000721 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692000722 dimer interface [polypeptide binding]; other site 1341692000723 putative CheW interface [polypeptide binding]; other site 1341692000724 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 1341692000725 amino acid transporter; Region: 2A0306; TIGR00909 1341692000726 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1341692000727 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1341692000728 active sites [active] 1341692000729 tetramer interface [polypeptide binding]; other site 1341692000730 imidazolonepropionase; Validated; Region: PRK09356 1341692000731 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 1341692000732 active site 1341692000733 urocanate hydratase; Provisional; Region: PRK05414 1341692000734 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 1341692000735 AAA ATPase domain; Region: AAA_16; pfam13191 1341692000736 26S proteasome subunit RPN7; Region: RPN7; pfam10602 1341692000737 TPR repeat; Region: TPR_11; pfam13414 1341692000738 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1341692000739 TPR motif; other site 1341692000740 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1341692000741 binding surface 1341692000742 glutamate formiminotransferase; Region: FtcD; TIGR02024 1341692000743 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 1341692000744 Formiminotransferase domain; Region: FTCD; pfam02971 1341692000745 acetylornithine aminotransferase; Provisional; Region: PRK02627 1341692000746 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 1341692000747 inhibitor-cofactor binding pocket; inhibition site 1341692000748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692000749 catalytic residue [active] 1341692000750 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 1341692000751 feedback inhibition sensing region; other site 1341692000752 homohexameric interface [polypeptide binding]; other site 1341692000753 nucleotide binding site [chemical binding]; other site 1341692000754 N-acetyl-L-glutamate binding site [chemical binding]; other site 1341692000755 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 1341692000756 heterotetramer interface [polypeptide binding]; other site 1341692000757 active site pocket [active] 1341692000758 cleavage site 1341692000759 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1341692000760 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1341692000761 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1341692000762 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1341692000763 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 1341692000764 ATP binding site [chemical binding]; other site 1341692000765 putative Mg++ binding site [ion binding]; other site 1341692000766 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 1341692000767 nucleotide binding region [chemical binding]; other site 1341692000768 ATP-binding site [chemical binding]; other site 1341692000769 Hemerythrin-like domain; Region: Hr-like; cd12108 1341692000770 Fe binding site [ion binding]; other site 1341692000771 FAD binding domain; Region: FAD_binding_4; pfam01565 1341692000772 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1341692000773 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1341692000774 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1341692000775 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1341692000776 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1341692000777 Ligand binding site [chemical binding]; other site 1341692000778 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1341692000779 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 1341692000780 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1341692000781 L-lactate permease; Region: Lactate_perm; cl00701 1341692000782 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1341692000783 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692000784 DNA-binding site [nucleotide binding]; DNA binding site 1341692000785 FCD domain; Region: FCD; pfam07729 1341692000786 RNase_H superfamily; Region: RNase_H_2; pfam13482 1341692000787 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1341692000788 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 1341692000789 motif II; other site 1341692000790 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1341692000791 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1341692000792 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1341692000793 G1 box; other site 1341692000794 GTP/Mg2+ binding site [chemical binding]; other site 1341692000795 Switch I region; other site 1341692000796 G2 box; other site 1341692000797 G3 box; other site 1341692000798 Switch II region; other site 1341692000799 G4 box; other site 1341692000800 G5 box; other site 1341692000801 Nucleoside recognition; Region: Gate; pfam07670 1341692000802 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1341692000803 Nucleoside recognition; Region: Gate; pfam07670 1341692000804 FOG: CBS domain [General function prediction only]; Region: COG0517 1341692000805 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1341692000806 RNase_H superfamily; Region: RNase_H_2; pfam13482 1341692000807 active site 1341692000808 substrate binding site [chemical binding]; other site 1341692000809 catalytic site [active] 1341692000810 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1341692000811 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1341692000812 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1341692000813 active site 1341692000814 HIGH motif; other site 1341692000815 KMSK motif region; other site 1341692000816 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1341692000817 tRNA binding surface [nucleotide binding]; other site 1341692000818 anticodon binding site; other site 1341692000819 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1341692000820 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1341692000821 NAD binding site [chemical binding]; other site 1341692000822 homodimer interface [polypeptide binding]; other site 1341692000823 active site 1341692000824 substrate binding site [chemical binding]; other site 1341692000825 D-glutamate deacylase; Validated; Region: PRK09061 1341692000826 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 1341692000827 active site 1341692000828 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 1341692000829 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1341692000830 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1341692000831 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1341692000832 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 1341692000833 dimer interface [polypeptide binding]; other site 1341692000834 conserved gate region; other site 1341692000835 putative PBP binding loops; other site 1341692000836 ABC-ATPase subunit interface; other site 1341692000837 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1341692000838 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 1341692000839 dimer interface [polypeptide binding]; other site 1341692000840 conserved gate region; other site 1341692000841 putative PBP binding loops; other site 1341692000842 ABC-ATPase subunit interface; other site 1341692000843 Predicted membrane protein [Function unknown]; Region: COG3428 1341692000844 Bacterial PH domain; Region: DUF304; pfam03703 1341692000845 Bacterial PH domain; Region: DUF304; pfam03703 1341692000846 Bacterial PH domain; Region: DUF304; cl01348 1341692000847 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 1341692000848 dimerization interface [polypeptide binding]; other site 1341692000849 putative DNA binding site [nucleotide binding]; other site 1341692000850 putative Zn2+ binding site [ion binding]; other site 1341692000851 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1341692000852 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1341692000853 active site 1341692000854 catalytic site [active] 1341692000855 lysine transporter; Provisional; Region: PRK10836 1341692000856 MutS domain III; Region: MutS_III; pfam05192 1341692000857 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 1341692000858 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 1341692000859 Walker A/P-loop; other site 1341692000860 ATP binding site [chemical binding]; other site 1341692000861 Q-loop/lid; other site 1341692000862 ABC transporter signature motif; other site 1341692000863 Walker B; other site 1341692000864 D-loop; other site 1341692000865 H-loop/switch region; other site 1341692000866 Hemerythrin; Region: Hemerythrin; cd12107 1341692000867 Fe binding site [ion binding]; other site 1341692000868 Membrane protein of unknown function; Region: DUF360; pfam04020 1341692000869 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1341692000870 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1341692000871 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1341692000872 active site 1341692000873 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1341692000874 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 1341692000875 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1341692000876 oligomer interface [polypeptide binding]; other site 1341692000877 putative active site [active] 1341692000878 metal binding site [ion binding]; metal-binding site 1341692000879 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1341692000880 AroM protein; Region: AroM; pfam07302 1341692000881 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 1341692000882 Protein of unknown function (DUF917); Region: DUF917; cl17829 1341692000883 OPT oligopeptide transporter protein; Region: OPT; cl14607 1341692000884 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1341692000885 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1341692000886 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1341692000887 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 1341692000888 oligomer interface [polypeptide binding]; other site 1341692000889 metal binding site [ion binding]; metal-binding site 1341692000890 metal binding site [ion binding]; metal-binding site 1341692000891 putative Cl binding site [ion binding]; other site 1341692000892 aspartate ring; other site 1341692000893 basic sphincter; other site 1341692000894 hydrophobic gate; other site 1341692000895 periplasmic entrance; other site 1341692000896 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1341692000897 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1341692000898 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1341692000899 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1341692000900 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1341692000901 Hpr binding site; other site 1341692000902 active site 1341692000903 homohexamer subunit interaction site [polypeptide binding]; other site 1341692000904 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 1341692000905 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 1341692000906 Arginase family; Region: Arginase; cd09989 1341692000907 active site 1341692000908 Mn binding site [ion binding]; other site 1341692000909 oligomer interface [polypeptide binding]; other site 1341692000910 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1341692000911 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1341692000912 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1341692000913 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1341692000914 Part of AAA domain; Region: AAA_19; pfam13245 1341692000915 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 1341692000916 active site 1341692000917 catalytic residues [active] 1341692000918 metal binding site [ion binding]; metal-binding site 1341692000919 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692000920 Walker A/P-loop; other site 1341692000921 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 1341692000922 Response regulator receiver domain; Region: Response_reg; pfam00072 1341692000923 active site 1341692000924 phosphorylation site [posttranslational modification] 1341692000925 intermolecular recognition site; other site 1341692000926 dimerization interface [polypeptide binding]; other site 1341692000927 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 1341692000928 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1341692000929 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 1341692000930 FeS/SAM binding site; other site 1341692000931 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 1341692000932 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 1341692000933 Zn binding site [ion binding]; other site 1341692000934 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1341692000935 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 1341692000936 diiron binding motif [ion binding]; other site 1341692000937 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1341692000938 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 1341692000939 homopentamer interface [polypeptide binding]; other site 1341692000940 active site 1341692000941 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1341692000942 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1341692000943 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 1341692000944 dimerization interface [polypeptide binding]; other site 1341692000945 active site 1341692000946 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1341692000947 Lumazine binding domain; Region: Lum_binding; pfam00677 1341692000948 Lumazine binding domain; Region: Lum_binding; pfam00677 1341692000949 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 1341692000950 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1341692000951 catalytic motif [active] 1341692000952 Zn binding site [ion binding]; other site 1341692000953 RibD C-terminal domain; Region: RibD_C; cl17279 1341692000954 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1341692000955 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 1341692000956 dimerization interface [polypeptide binding]; other site 1341692000957 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692000958 dimer interface [polypeptide binding]; other site 1341692000959 putative CheW interface [polypeptide binding]; other site 1341692000960 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1341692000961 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1341692000962 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 1341692000963 putative binding surface; other site 1341692000964 active site 1341692000965 P2 response regulator binding domain; Region: P2; pfam07194 1341692000966 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1341692000967 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 1341692000968 ATP binding site [chemical binding]; other site 1341692000969 Mg2+ binding site [ion binding]; other site 1341692000970 G-X-G motif; other site 1341692000971 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 1341692000972 Response regulator receiver domain; Region: Response_reg; pfam00072 1341692000973 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 1341692000974 active site 1341692000975 phosphorylation site [posttranslational modification] 1341692000976 intermolecular recognition site; other site 1341692000977 dimerization interface [polypeptide binding]; other site 1341692000978 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1341692000979 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1341692000980 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692000981 Walker A/P-loop; other site 1341692000982 ATP binding site [chemical binding]; other site 1341692000983 Q-loop/lid; other site 1341692000984 ABC transporter signature motif; other site 1341692000985 Walker B; other site 1341692000986 D-loop; other site 1341692000987 H-loop/switch region; other site 1341692000988 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 1341692000989 dimer interface [polypeptide binding]; other site 1341692000990 conserved gate region; other site 1341692000991 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1341692000992 putative PBP binding loops; other site 1341692000993 ABC-ATPase subunit interface; other site 1341692000994 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1341692000995 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1341692000996 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 1341692000997 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692000998 Walker A/P-loop; other site 1341692000999 ATP binding site [chemical binding]; other site 1341692001000 Q-loop/lid; other site 1341692001001 ABC transporter signature motif; other site 1341692001002 Walker B; other site 1341692001003 D-loop; other site 1341692001004 H-loop/switch region; other site 1341692001005 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1341692001006 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 1341692001007 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1341692001008 metal binding site [ion binding]; metal-binding site 1341692001009 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 1341692001010 cobalt transport protein CbiM; Validated; Region: PRK08319 1341692001011 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1341692001012 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 1341692001013 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1341692001014 Metal-binding active site; metal-binding site 1341692001015 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1341692001016 HlyD family secretion protein; Region: HlyD_3; pfam13437 1341692001017 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1341692001018 HlyD family secretion protein; Region: HlyD_3; pfam13437 1341692001019 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692001020 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692001021 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692001022 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 1341692001023 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 1341692001024 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 1341692001025 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1341692001026 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1341692001027 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1341692001028 Walker A/P-loop; other site 1341692001029 ATP binding site [chemical binding]; other site 1341692001030 Q-loop/lid; other site 1341692001031 ABC transporter signature motif; other site 1341692001032 Walker B; other site 1341692001033 D-loop; other site 1341692001034 H-loop/switch region; other site 1341692001035 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1341692001036 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1341692001037 Walker A/P-loop; other site 1341692001038 ATP binding site [chemical binding]; other site 1341692001039 Q-loop/lid; other site 1341692001040 ABC transporter signature motif; other site 1341692001041 Walker B; other site 1341692001042 D-loop; other site 1341692001043 H-loop/switch region; other site 1341692001044 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1341692001045 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692001046 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692001047 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692001048 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1341692001049 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1341692001050 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1341692001051 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 1341692001052 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 1341692001053 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 1341692001054 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 1341692001055 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1341692001056 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1341692001057 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1341692001058 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1341692001059 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1341692001060 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1341692001061 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1341692001062 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692001063 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692001064 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692001065 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1341692001066 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1341692001067 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1341692001068 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1341692001069 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1341692001070 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1341692001071 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1341692001072 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1341692001073 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 1341692001074 FeS/SAM binding site; other site 1341692001075 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1341692001076 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1341692001077 Predicted transcriptional regulators [Transcription]; Region: COG1695 1341692001078 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutL; COG4816 1341692001079 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 1341692001080 putative hexamer interface [polypeptide binding]; other site 1341692001081 putative hexagonal pore; other site 1341692001082 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 1341692001083 putative hexamer interface [polypeptide binding]; other site 1341692001084 putative hexagonal pore; other site 1341692001085 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 1341692001086 L-aspartate oxidase; Provisional; Region: PRK06175 1341692001087 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1341692001088 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 1341692001089 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1341692001090 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1341692001091 MarR family; Region: MarR; pfam01047 1341692001092 MarR family; Region: MarR_2; cl17246 1341692001093 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1341692001094 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 1341692001095 putative active site [active] 1341692001096 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1341692001097 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 1341692001098 putative active site [active] 1341692001099 putative metal binding site [ion binding]; other site 1341692001100 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1341692001101 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1341692001102 dimerization interface [polypeptide binding]; other site 1341692001103 Cache domain; Region: Cache_1; pfam02743 1341692001104 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 1341692001105 dimerization interface [polypeptide binding]; other site 1341692001106 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692001107 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692001108 dimer interface [polypeptide binding]; other site 1341692001109 putative CheW interface [polypeptide binding]; other site 1341692001110 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 1341692001111 active site 1341692001112 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1341692001113 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1341692001114 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 1341692001115 dimerization interface [polypeptide binding]; other site 1341692001116 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692001117 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692001118 dimer interface [polypeptide binding]; other site 1341692001119 putative CheW interface [polypeptide binding]; other site 1341692001120 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1341692001121 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 1341692001122 Walker A/P-loop; other site 1341692001123 ATP binding site [chemical binding]; other site 1341692001124 Q-loop/lid; other site 1341692001125 ABC transporter signature motif; other site 1341692001126 Walker B; other site 1341692001127 D-loop; other site 1341692001128 H-loop/switch region; other site 1341692001129 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 1341692001130 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692001131 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 1341692001132 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692001133 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 1341692001134 active site 1341692001135 phosphorylation site [posttranslational modification] 1341692001136 intermolecular recognition site; other site 1341692001137 dimerization interface [polypeptide binding]; other site 1341692001138 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 1341692001139 DNA binding site [nucleotide binding] 1341692001140 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692001141 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 1341692001142 dimer interface [polypeptide binding]; other site 1341692001143 phosphorylation site [posttranslational modification] 1341692001144 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 1341692001145 ATP binding site [chemical binding]; other site 1341692001146 Mg2+ binding site [ion binding]; other site 1341692001147 G-X-G motif; other site 1341692001148 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 1341692001149 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 1341692001150 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1341692001151 active site 1341692001152 putative interdomain interaction site [polypeptide binding]; other site 1341692001153 putative metal-binding site [ion binding]; other site 1341692001154 putative nucleotide binding site [chemical binding]; other site 1341692001155 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; cl11986 1341692001156 domain I; other site 1341692001157 DNA binding groove [nucleotide binding] 1341692001158 phosphate binding site [ion binding]; other site 1341692001159 domain II; other site 1341692001160 domain III; other site 1341692001161 nucleotide binding site [chemical binding]; other site 1341692001162 catalytic site [active] 1341692001163 domain IV; other site 1341692001164 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1341692001165 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1341692001166 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1341692001167 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 1341692001168 ATP binding site [chemical binding]; other site 1341692001169 Mg++ binding site [ion binding]; other site 1341692001170 motif III; other site 1341692001171 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 1341692001172 nucleotide binding region [chemical binding]; other site 1341692001173 ATP-binding site [chemical binding]; other site 1341692001174 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 1341692001175 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl15424 1341692001176 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1341692001177 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692001178 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1341692001179 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 1341692001180 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1341692001181 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 1341692001182 nitrogenase reductase-like protein; Reviewed; Region: PRK13231 1341692001183 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 1341692001184 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 1341692001185 dimerization interface [polypeptide binding]; other site 1341692001186 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1341692001187 ATP binding site [chemical binding]; other site 1341692001188 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 1341692001189 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1341692001190 HupF/HypC family; Region: HupF_HypC; pfam01455 1341692001191 Acylphosphatase; Region: Acylphosphatase; pfam00708 1341692001192 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 1341692001193 HypF finger; Region: zf-HYPF; pfam07503 1341692001194 HypF finger; Region: zf-HYPF; pfam07503 1341692001195 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1341692001196 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 1341692001197 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1341692001198 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 1341692001199 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 1341692001200 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; Region: Fer4_NifH; pfam00142 1341692001201 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 1341692001202 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1341692001203 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 1341692001204 non-specific DNA binding site [nucleotide binding]; other site 1341692001205 salt bridge; other site 1341692001206 sequence-specific DNA binding site [nucleotide binding]; other site 1341692001207 Cupin domain; Region: Cupin_2; pfam07883 1341692001208 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1341692001209 Isochorismatase family; Region: Isochorismatase; pfam00857 1341692001210 catalytic triad [active] 1341692001211 conserved cis-peptide bond; other site 1341692001212 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1341692001213 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1341692001214 active site 1341692001215 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1341692001216 putative transporter; Provisional; Region: PRK10484 1341692001217 Na binding site [ion binding]; other site 1341692001218 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1341692001219 FAD binding domain; Region: FAD_binding_4; pfam01565 1341692001220 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1341692001221 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 1341692001222 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 1341692001223 putative metal binding site [ion binding]; other site 1341692001224 putative dimer interface [polypeptide binding]; other site 1341692001225 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1341692001226 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 1341692001227 putative NAD(P) binding site [chemical binding]; other site 1341692001228 catalytic Zn binding site [ion binding]; other site 1341692001229 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 1341692001230 GAF domain; Region: GAF; pfam01590 1341692001231 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 1341692001232 Walker A motif; other site 1341692001233 ATP binding site [chemical binding]; other site 1341692001234 Walker B motif; other site 1341692001235 arginine finger; other site 1341692001236 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1341692001237 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1341692001238 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 1341692001239 Cl- selectivity filter; other site 1341692001240 Cl- binding residues [ion binding]; other site 1341692001241 pore gating glutamate residue; other site 1341692001242 dimer interface [polypeptide binding]; other site 1341692001243 H+/Cl- coupling transport residue; other site 1341692001244 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1341692001245 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1341692001246 Walker A/P-loop; other site 1341692001247 ATP binding site [chemical binding]; other site 1341692001248 Q-loop/lid; other site 1341692001249 ABC transporter signature motif; other site 1341692001250 Walker B; other site 1341692001251 D-loop; other site 1341692001252 H-loop/switch region; other site 1341692001253 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1341692001254 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1341692001255 HlyD family secretion protein; Region: HlyD_3; pfam13437 1341692001256 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1341692001257 Protein export membrane protein; Region: SecD_SecF; cl14618 1341692001258 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1341692001259 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692001260 MarR family; Region: MarR; pfam01047 1341692001261 AAA ATPase domain; Region: AAA_16; pfam13191 1341692001262 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1341692001263 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 1341692001264 DNA binding residues [nucleotide binding] 1341692001265 dimerization interface [polypeptide binding]; other site 1341692001266 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 1341692001267 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 1341692001268 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 1341692001269 metal ion-dependent adhesion site (MIDAS); other site 1341692001270 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1810 1341692001271 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1341692001272 camphor resistance protein CrcB; Provisional; Region: PRK14232 1341692001273 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 1341692001274 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1341692001275 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1341692001276 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1341692001277 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 1341692001278 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1341692001279 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1341692001280 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1341692001281 catalytic residue [active] 1341692001282 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 1341692001283 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1341692001284 PYR/PP interface [polypeptide binding]; other site 1341692001285 dimer interface [polypeptide binding]; other site 1341692001286 TPP binding site [chemical binding]; other site 1341692001287 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1341692001288 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 1341692001289 TPP-binding site [chemical binding]; other site 1341692001290 dimer interface [polypeptide binding]; other site 1341692001291 amino acid transporter; Region: 2A0306; TIGR00909 1341692001292 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 1341692001293 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1341692001294 hypothetical protein; Region: PHA00727 1341692001295 amino acid transporter; Region: 2A0306; TIGR00909 1341692001296 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 1341692001297 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1341692001298 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1341692001299 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1341692001300 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1341692001301 dimer interface [polypeptide binding]; other site 1341692001302 active site 1341692001303 metal binding site [ion binding]; metal-binding site 1341692001304 DNA topoisomerase III; Provisional; Region: PRK07726 1341692001305 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1341692001306 active site 1341692001307 putative interdomain interaction site [polypeptide binding]; other site 1341692001308 putative metal-binding site [ion binding]; other site 1341692001309 putative nucleotide binding site [chemical binding]; other site 1341692001310 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 1341692001311 domain I; other site 1341692001312 DNA binding groove [nucleotide binding] 1341692001313 phosphate binding site [ion binding]; other site 1341692001314 domain II; other site 1341692001315 domain III; other site 1341692001316 nucleotide binding site [chemical binding]; other site 1341692001317 catalytic site [active] 1341692001318 domain IV; other site 1341692001319 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1341692001320 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1341692001321 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1341692001322 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1341692001323 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 1341692001324 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 1341692001325 Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfN_like; cd01971 1341692001326 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1341692001327 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 1341692001328 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1341692001329 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 1341692001330 nitrogenase iron protein; Region: nifH; TIGR01287 1341692001331 Nucleotide-binding sites [chemical binding]; other site 1341692001332 Walker A motif; other site 1341692001333 Switch I region of nucleotide binding site; other site 1341692001334 Fe4S4 binding sites [ion binding]; other site 1341692001335 Switch II region of nucleotide binding site; other site 1341692001336 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 1341692001337 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 1341692001338 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1341692001339 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1341692001340 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1341692001341 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1341692001342 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1341692001343 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1341692001344 carbamate kinase; Reviewed; Region: PRK12686 1341692001345 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1341692001346 putative substrate binding site [chemical binding]; other site 1341692001347 nucleotide binding site [chemical binding]; other site 1341692001348 nucleotide binding site [chemical binding]; other site 1341692001349 homodimer interface [polypeptide binding]; other site 1341692001350 uracil transporter; Provisional; Region: PRK10720 1341692001351 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1341692001352 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1341692001353 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1341692001354 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1341692001355 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1341692001356 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1341692001357 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1341692001358 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1341692001359 DUF35 OB-fold domain; Region: DUF35; pfam01796 1341692001360 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 1341692001361 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1341692001362 active site 1341692001363 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1341692001364 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 1341692001365 membrane protein FdrA; Validated; Region: PRK06091 1341692001366 CoA binding domain; Region: CoA_binding; pfam02629 1341692001367 CoA-ligase; Region: Ligase_CoA; pfam00549 1341692001368 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 1341692001369 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1341692001370 DRTGG domain; Region: DRTGG; pfam07085 1341692001371 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1341692001372 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1341692001373 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1341692001374 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1341692001375 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1341692001376 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1341692001377 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1341692001378 [4Fe-4S] binding site [ion binding]; other site 1341692001379 molybdopterin cofactor binding site; other site 1341692001380 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1341692001381 molybdopterin cofactor binding site; other site 1341692001382 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1341692001383 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 1341692001384 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 1341692001385 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1341692001386 4Fe-4S binding domain; Region: Fer4; pfam00037 1341692001387 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 1341692001388 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 1341692001389 FAD binding pocket [chemical binding]; other site 1341692001390 FAD binding motif [chemical binding]; other site 1341692001391 phosphate binding motif [ion binding]; other site 1341692001392 beta-alpha-beta structure motif; other site 1341692001393 NAD binding pocket [chemical binding]; other site 1341692001394 Iron coordination center [ion binding]; other site 1341692001395 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 1341692001396 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1341692001397 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 1341692001398 ligand binding site [chemical binding]; other site 1341692001399 flexible hinge region; other site 1341692001400 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 1341692001401 putative switch regulator; other site 1341692001402 non-specific DNA interactions [nucleotide binding]; other site 1341692001403 DNA binding site [nucleotide binding] 1341692001404 sequence specific DNA binding site [nucleotide binding]; other site 1341692001405 putative cAMP binding site [chemical binding]; other site 1341692001406 phenylhydantoinase; Validated; Region: PRK08323 1341692001407 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1341692001408 tetramer interface [polypeptide binding]; other site 1341692001409 active site 1341692001410 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1341692001411 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1341692001412 putative substrate binding site [chemical binding]; other site 1341692001413 nucleotide binding site [chemical binding]; other site 1341692001414 nucleotide binding site [chemical binding]; other site 1341692001415 homodimer interface [polypeptide binding]; other site 1341692001416 peptidase; Reviewed; Region: PRK13004 1341692001417 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 1341692001418 putative metal binding site [ion binding]; other site 1341692001419 putative dimer interface [polypeptide binding]; other site 1341692001420 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 1341692001421 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 1341692001422 active site 1341692001423 putative substrate binding pocket [chemical binding]; other site 1341692001424 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 1341692001425 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1341692001426 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 1341692001427 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1341692001428 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1341692001429 xanthine permease; Region: pbuX; TIGR03173 1341692001430 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1341692001431 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 1341692001432 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1341692001433 catalytic residue [active] 1341692001434 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1341692001435 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 1341692001436 active site 1341692001437 putative substrate binding pocket [chemical binding]; other site 1341692001438 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 1341692001439 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1341692001440 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1341692001441 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1341692001442 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1341692001443 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1341692001444 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1341692001445 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1341692001446 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 1341692001447 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1341692001448 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1341692001449 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1341692001450 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1341692001451 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1341692001452 Ligand binding site; other site 1341692001453 metal-binding site 1341692001454 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1341692001455 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1341692001456 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1341692001457 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1341692001458 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1341692001459 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 1341692001460 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1341692001461 active site 1341692001462 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1341692001463 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1341692001464 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 1341692001465 guanine deaminase; Region: guan_deamin; TIGR02967 1341692001466 active site 1341692001467 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 1341692001468 PAS domain; Region: PAS; smart00091 1341692001469 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 1341692001470 Walker A motif; other site 1341692001471 ATP binding site [chemical binding]; other site 1341692001472 Walker B motif; other site 1341692001473 arginine finger; other site 1341692001474 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1341692001475 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 1341692001476 catalytic core [active] 1341692001477 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1341692001478 Ligand binding site; other site 1341692001479 metal-binding site 1341692001480 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692001481 Zn2+ binding site [ion binding]; other site 1341692001482 Mg2+ binding site [ion binding]; other site 1341692001483 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1341692001484 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1341692001485 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1341692001486 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1341692001487 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1341692001488 acyl-activating enzyme (AAE) consensus motif; other site 1341692001489 active site 1341692001490 AMP binding site [chemical binding]; other site 1341692001491 CoA binding site [chemical binding]; other site 1341692001492 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 1341692001493 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1341692001494 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 1341692001495 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1341692001496 Cysteine-rich domain; Region: CCG; pfam02754 1341692001497 Cysteine-rich domain; Region: CCG; pfam02754 1341692001498 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1341692001499 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 1341692001500 catalytic loop [active] 1341692001501 iron binding site [ion binding]; other site 1341692001502 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1341692001503 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1341692001504 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1341692001505 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1341692001506 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1341692001507 PAS domain; Region: PAS; smart00091 1341692001508 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 1341692001509 Walker A motif; other site 1341692001510 ATP binding site [chemical binding]; other site 1341692001511 Walker B motif; other site 1341692001512 arginine finger; other site 1341692001513 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1341692001514 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1341692001515 tetramer interface [polypeptide binding]; other site 1341692001516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692001517 catalytic residue [active] 1341692001518 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 1341692001519 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1341692001520 tetramer interface [polypeptide binding]; other site 1341692001521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692001522 catalytic residue [active] 1341692001523 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 1341692001524 lipoyl attachment site [posttranslational modification]; other site 1341692001525 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1341692001526 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1341692001527 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1341692001528 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1341692001529 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1341692001530 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1341692001531 putative hydratase; Provisional; Region: PRK11413 1341692001532 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1341692001533 substrate binding site [chemical binding]; other site 1341692001534 ligand binding site [chemical binding]; other site 1341692001535 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1341692001536 substrate binding site [chemical binding]; other site 1341692001537 PHP domain; Region: PHP; pfam02811 1341692001538 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1341692001539 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1341692001540 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 1341692001541 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1341692001542 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 1341692001543 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1341692001544 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1341692001545 active site 1341692001546 FMN binding site [chemical binding]; other site 1341692001547 substrate binding site [chemical binding]; other site 1341692001548 putative catalytic residue [active] 1341692001549 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1341692001550 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1341692001551 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1341692001552 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1341692001553 putative active site [active] 1341692001554 putative metal binding site [ion binding]; other site 1341692001555 Predicted transcriptional regulators [Transcription]; Region: COG1733 1341692001556 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 1341692001557 dimerization interface [polypeptide binding]; other site 1341692001558 putative DNA binding site [nucleotide binding]; other site 1341692001559 putative Zn2+ binding site [ion binding]; other site 1341692001560 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1341692001561 NADH kinase; Region: PLN02929 1341692001562 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1341692001563 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1341692001564 Homoserine O-succinyltransferase; Region: HTS; pfam04204 1341692001565 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1341692001566 proposed active site lysine [active] 1341692001567 conserved cys residue [active] 1341692001568 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692001569 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692001570 dimer interface [polypeptide binding]; other site 1341692001571 putative CheW interface [polypeptide binding]; other site 1341692001572 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1341692001573 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1341692001574 lysine transporter; Provisional; Region: PRK10836 1341692001575 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1341692001576 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 1341692001577 dimer interface [polypeptide binding]; other site 1341692001578 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692001579 catalytic residue [active] 1341692001580 cystathionine beta-lyase; Provisional; Region: PRK07671 1341692001581 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1341692001582 homodimer interface [polypeptide binding]; other site 1341692001583 substrate-cofactor binding pocket; other site 1341692001584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692001585 catalytic residue [active] 1341692001586 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1341692001587 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 1341692001588 S-adenosylmethionine binding site [chemical binding]; other site 1341692001589 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 1341692001590 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 1341692001591 dimerization interface [polypeptide binding]; other site 1341692001592 active site 1341692001593 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 1341692001594 L-aspartate oxidase; Provisional; Region: PRK06175 1341692001595 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1341692001596 Quinolinate synthetase A protein; Region: NadA; pfam02445 1341692001597 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692001598 dimer interface [polypeptide binding]; other site 1341692001599 putative CheW interface [polypeptide binding]; other site 1341692001600 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 1341692001601 serpin-like protein; Provisional; Region: PHA02660 1341692001602 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cd00172 1341692001603 reactive center loop; other site 1341692001604 BioY family; Region: BioY; pfam02632 1341692001605 Protein of unknown function (DUF1284); Region: DUF1284; pfam06935 1341692001606 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1341692001607 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1341692001608 folate binding site [chemical binding]; other site 1341692001609 NADP+ binding site [chemical binding]; other site 1341692001610 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1341692001611 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1341692001612 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1341692001613 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1341692001614 FMN-binding domain; Region: FMN_bind; cl01081 1341692001615 RNA polymerase sigma-I factor; Region: spore_sigI; TIGR02895 1341692001616 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692001617 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1341692001618 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 1341692001619 S-adenosylmethionine binding site [chemical binding]; other site 1341692001620 H+ Antiporter protein; Region: 2A0121; TIGR00900 1341692001621 H+ Antiporter protein; Region: 2A0121; TIGR00900 1341692001622 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 1341692001623 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1341692001624 active site 1341692001625 substrate binding site [chemical binding]; other site 1341692001626 trimer interface [polypeptide binding]; other site 1341692001627 CoA binding site [chemical binding]; other site 1341692001628 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 1341692001629 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 1341692001630 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1341692001631 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 1341692001632 S-adenosylmethionine binding site [chemical binding]; other site 1341692001633 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1341692001634 nudix motif; other site 1341692001635 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 1341692001636 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 1341692001637 nudix motif; other site 1341692001638 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 1341692001639 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 1341692001640 G1 box; other site 1341692001641 putative GEF interaction site [polypeptide binding]; other site 1341692001642 GTP/Mg2+ binding site [chemical binding]; other site 1341692001643 Switch I region; other site 1341692001644 G2 box; other site 1341692001645 G3 box; other site 1341692001646 Switch II region; other site 1341692001647 G4 box; other site 1341692001648 G5 box; other site 1341692001649 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 1341692001650 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 1341692001651 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 1341692001652 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1341692001653 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1341692001654 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1341692001655 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1341692001656 Walker A/P-loop; other site 1341692001657 ATP binding site [chemical binding]; other site 1341692001658 Q-loop/lid; other site 1341692001659 ABC transporter signature motif; other site 1341692001660 Walker B; other site 1341692001661 D-loop; other site 1341692001662 H-loop/switch region; other site 1341692001663 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1341692001664 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692001665 Walker A/P-loop; other site 1341692001666 ATP binding site [chemical binding]; other site 1341692001667 Q-loop/lid; other site 1341692001668 ABC transporter signature motif; other site 1341692001669 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1341692001670 Walker B; other site 1341692001671 D-loop; other site 1341692001672 LytTr DNA-binding domain; Region: LytTR; pfam04397 1341692001673 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1341692001674 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1341692001675 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1341692001676 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1341692001677 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 1341692001678 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1341692001679 Clp amino terminal domain; Region: Clp_N; pfam02861 1341692001680 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 1341692001681 Walker A motif; other site 1341692001682 ATP binding site [chemical binding]; other site 1341692001683 Walker B motif; other site 1341692001684 arginine finger; other site 1341692001685 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 1341692001686 Walker A motif; other site 1341692001687 ATP binding site [chemical binding]; other site 1341692001688 Walker B motif; other site 1341692001689 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1341692001690 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1341692001691 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692001692 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692001693 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692001694 Family description; Region: VCBS; pfam13517 1341692001695 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1341692001696 Cache domain; Region: Cache_1; pfam02743 1341692001697 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692001698 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692001699 dimer interface [polypeptide binding]; other site 1341692001700 putative CheW interface [polypeptide binding]; other site 1341692001701 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1341692001702 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1341692001703 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1341692001704 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 1341692001705 putative substrate translocation pore; other site 1341692001706 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 1341692001707 sequence-specific DNA binding site [nucleotide binding]; other site 1341692001708 salt bridge; other site 1341692001709 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 1341692001710 Predicted transcriptional regulators [Transcription]; Region: COG1695 1341692001711 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1341692001712 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1341692001713 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 1341692001714 putative active site [active] 1341692001715 heme pocket [chemical binding]; other site 1341692001716 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 1341692001717 Walker A motif; other site 1341692001718 ATP binding site [chemical binding]; other site 1341692001719 Walker B motif; other site 1341692001720 arginine finger; other site 1341692001721 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1341692001722 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 1341692001723 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1341692001724 tetramer interface [polypeptide binding]; other site 1341692001725 catalytic Zn binding site [ion binding]; other site 1341692001726 NADP binding site [chemical binding]; other site 1341692001727 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1341692001728 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 1341692001729 putative active site [active] 1341692001730 heme pocket [chemical binding]; other site 1341692001731 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 1341692001732 Walker A motif; other site 1341692001733 ATP binding site [chemical binding]; other site 1341692001734 Walker B motif; other site 1341692001735 arginine finger; other site 1341692001736 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1341692001737 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1341692001738 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 1341692001739 putative active site [active] 1341692001740 metal binding site [ion binding]; metal-binding site 1341692001741 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 1341692001742 metal-binding site [ion binding] 1341692001743 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1341692001744 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 1341692001745 metal-binding site [ion binding] 1341692001746 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1341692001747 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 1341692001748 metal-binding site [ion binding] 1341692001749 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 1341692001750 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1341692001751 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 1341692001752 motif II; other site 1341692001753 Uncharacterized family 2; belongs to a superfamily containing transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_2; cd10159 1341692001754 putative homodimer interface [polypeptide binding]; other site 1341692001755 putative homotetramer interface [polypeptide binding]; other site 1341692001756 putative allosteric switch controlling residues; other site 1341692001757 putative metal binding site [ion binding]; other site 1341692001758 putative homodimer-homodimer interface [polypeptide binding]; other site 1341692001759 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 1341692001760 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1341692001761 active site 1341692001762 motif I; other site 1341692001763 motif II; other site 1341692001764 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1341692001765 Predicted transcriptional regulators [Transcription]; Region: COG1695 1341692001766 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1341692001767 EDD domain protein, DegV family; Region: DegV; TIGR00762 1341692001768 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1341692001769 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1341692001770 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1341692001771 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1341692001772 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1341692001773 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 1341692001774 substrate binding pocket [chemical binding]; other site 1341692001775 membrane-bound complex binding site; other site 1341692001776 hinge residues; other site 1341692001777 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1341692001778 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1341692001779 MOSC domain; Region: MOSC; pfam03473 1341692001780 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 1341692001781 trimer interface [polypeptide binding]; other site 1341692001782 dimer interface [polypeptide binding]; other site 1341692001783 putative active site [active] 1341692001784 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 1341692001785 MPT binding site; other site 1341692001786 trimer interface [polypeptide binding]; other site 1341692001787 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1341692001788 Sulfatase; Region: Sulfatase; pfam00884 1341692001789 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 1341692001790 dimerization interface [polypeptide binding]; other site 1341692001791 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 1341692001792 dimer interface [polypeptide binding]; other site 1341692001793 phosphorylation site [posttranslational modification] 1341692001794 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 1341692001795 ATP binding site [chemical binding]; other site 1341692001796 Mg2+ binding site [ion binding]; other site 1341692001797 G-X-G motif; other site 1341692001798 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692001799 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 1341692001800 active site 1341692001801 phosphorylation site [posttranslational modification] 1341692001802 intermolecular recognition site; other site 1341692001803 dimerization interface [polypeptide binding]; other site 1341692001804 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 1341692001805 DNA binding site [nucleotide binding] 1341692001806 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1341692001807 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1341692001808 Walker A/P-loop; other site 1341692001809 ATP binding site [chemical binding]; other site 1341692001810 Q-loop/lid; other site 1341692001811 ABC transporter signature motif; other site 1341692001812 Walker B; other site 1341692001813 D-loop; other site 1341692001814 H-loop/switch region; other site 1341692001815 Predicted transcriptional regulators [Transcription]; Region: COG1725 1341692001816 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692001817 DNA-binding site [nucleotide binding]; DNA binding site 1341692001818 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1341692001819 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1341692001820 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 1341692001821 Putative amidase domain; Region: Amidase_6; pfam12671 1341692001822 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1341692001823 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 1341692001824 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 1341692001825 active site 1341692001826 catalytic tetrad [active] 1341692001827 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 1341692001828 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1341692001829 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1341692001830 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1341692001831 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1341692001832 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1341692001833 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1341692001834 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 1341692001835 substrate binding site [chemical binding]; other site 1341692001836 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1341692001837 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1341692001838 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1341692001839 catalytic site [active] 1341692001840 subunit interface [polypeptide binding]; other site 1341692001841 ornithine carbamoyltransferase; Validated; Region: PRK02102 1341692001842 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1341692001843 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1341692001844 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 1341692001845 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1341692001846 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 1341692001847 S-adenosylmethionine binding site [chemical binding]; other site 1341692001848 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 1341692001849 ATP-binding site [chemical binding]; other site 1341692001850 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1341692001851 HRDC domain; Region: HRDC; pfam00570 1341692001852 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1341692001853 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 1341692001854 ATP binding site [chemical binding]; other site 1341692001855 putative Mg++ binding site [ion binding]; other site 1341692001856 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1341692001857 nucleotide binding region [chemical binding]; other site 1341692001858 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 1341692001859 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 1341692001860 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 1341692001861 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1341692001862 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 1341692001863 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 1341692001864 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1341692001865 citrate lyase, beta subunit; Region: citE; TIGR01588 1341692001866 citrate lyase subunit gamma; Provisional; Region: PRK13253 1341692001867 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 1341692001868 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1341692001869 active site 1341692001870 nucleotide binding site [chemical binding]; other site 1341692001871 HIGH motif; other site 1341692001872 KMSKS motif; other site 1341692001873 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1341692001874 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1341692001875 putative NAD(P) binding site [chemical binding]; other site 1341692001876 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 1341692001877 NMT1/THI5 like; Region: NMT1; pfam09084 1341692001878 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1341692001879 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 1341692001880 dimer interface [polypeptide binding]; other site 1341692001881 conserved gate region; other site 1341692001882 putative PBP binding loops; other site 1341692001883 ABC-ATPase subunit interface; other site 1341692001884 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1341692001885 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 1341692001886 Walker A/P-loop; other site 1341692001887 ATP binding site [chemical binding]; other site 1341692001888 Q-loop/lid; other site 1341692001889 ABC transporter signature motif; other site 1341692001890 Walker B; other site 1341692001891 D-loop; other site 1341692001892 H-loop/switch region; other site 1341692001893 Putative transcription activator [Transcription]; Region: TenA; COG0819 1341692001894 TspO/MBR family; Region: TspO_MBR; pfam03073 1341692001895 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692001896 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692001897 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 1341692001898 dimerization interface [polypeptide binding]; other site 1341692001899 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 1341692001900 molybdopterin cofactor binding site; other site 1341692001901 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 1341692001902 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1341692001903 molybdopterin cofactor binding site; other site 1341692001904 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1341692001905 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1341692001906 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 1341692001907 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 1341692001908 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 1341692001909 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 1341692001910 FAD binding pocket [chemical binding]; other site 1341692001911 FAD binding motif [chemical binding]; other site 1341692001912 phosphate binding motif [ion binding]; other site 1341692001913 beta-alpha-beta structure motif; other site 1341692001914 NAD binding pocket [chemical binding]; other site 1341692001915 Iron coordination center [ion binding]; other site 1341692001916 Stage II sporulation protein; Region: SpoIID; pfam08486 1341692001917 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 1341692001918 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1341692001919 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1341692001920 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1341692001921 Prephenate dehydratase; Region: PDT; pfam00800 1341692001922 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 1341692001923 putative L-Phe binding site [chemical binding]; other site 1341692001924 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692001925 MarR family; Region: MarR_2; pfam12802 1341692001926 Predicted membrane protein [Function unknown]; Region: COG2364 1341692001927 hypothetical protein; Provisional; Region: PRK06771 1341692001928 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1341692001929 active site 1341692001930 SdpI/YhfL protein family; Region: SdpI; pfam13630 1341692001931 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 1341692001932 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1341692001933 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1341692001934 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1341692001935 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1341692001936 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1341692001937 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1341692001938 DNA binding residues [nucleotide binding] 1341692001939 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1341692001940 putative dimer interface [polypeptide binding]; other site 1341692001941 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1341692001942 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692001943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692001944 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 1341692001945 dimerization interface [polypeptide binding]; other site 1341692001946 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692001947 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 1341692001948 dimerization interface [polypeptide binding]; other site 1341692001949 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 1341692001950 dimer interface [polypeptide binding]; other site 1341692001951 phosphorylation site [posttranslational modification] 1341692001952 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 1341692001953 ATP binding site [chemical binding]; other site 1341692001954 Mg2+ binding site [ion binding]; other site 1341692001955 G-X-G motif; other site 1341692001956 Erythromycin esterase; Region: Erythro_esteras; pfam05139 1341692001957 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1341692001958 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692001959 Walker A/P-loop; other site 1341692001960 ATP binding site [chemical binding]; other site 1341692001961 Q-loop/lid; other site 1341692001962 ABC transporter signature motif; other site 1341692001963 Walker B; other site 1341692001964 D-loop; other site 1341692001965 H-loop/switch region; other site 1341692001966 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692001967 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 1341692001968 active site 1341692001969 phosphorylation site [posttranslational modification] 1341692001970 intermolecular recognition site; other site 1341692001971 dimerization interface [polypeptide binding]; other site 1341692001972 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 1341692001973 DNA binding site [nucleotide binding] 1341692001974 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1341692001975 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692001976 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 1341692001977 active site 1341692001978 phosphorylation site [posttranslational modification] 1341692001979 intermolecular recognition site; other site 1341692001980 dimerization interface [polypeptide binding]; other site 1341692001981 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 1341692001982 DNA binding site [nucleotide binding] 1341692001983 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692001984 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 1341692001985 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 1341692001986 ATP binding site [chemical binding]; other site 1341692001987 Mg2+ binding site [ion binding]; other site 1341692001988 G-X-G motif; other site 1341692001989 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692001990 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1341692001991 Walker A/P-loop; other site 1341692001992 ATP binding site [chemical binding]; other site 1341692001993 Q-loop/lid; other site 1341692001994 ABC transporter signature motif; other site 1341692001995 Walker B; other site 1341692001996 D-loop; other site 1341692001997 H-loop/switch region; other site 1341692001998 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1341692001999 FtsX-like permease family; Region: FtsX; pfam02687 1341692002000 FtsX-like permease family; Region: FtsX; pfam02687 1341692002001 6-phosphofructokinase; Provisional; Region: PRK03202 1341692002002 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1341692002003 active site 1341692002004 ADP/pyrophosphate binding site [chemical binding]; other site 1341692002005 dimerization interface [polypeptide binding]; other site 1341692002006 allosteric effector site; other site 1341692002007 fructose-1,6-bisphosphate binding site; other site 1341692002008 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1341692002009 MFS/sugar transport protein; Region: MFS_2; pfam13347 1341692002010 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1341692002011 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1341692002012 NAD(P) binding site [chemical binding]; other site 1341692002013 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1341692002014 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 1341692002015 PYR/PP interface [polypeptide binding]; other site 1341692002016 dimer interface [polypeptide binding]; other site 1341692002017 TPP binding site [chemical binding]; other site 1341692002018 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1341692002019 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 1341692002020 TPP-binding site [chemical binding]; other site 1341692002021 dimer interface [polypeptide binding]; other site 1341692002022 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1341692002023 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1341692002024 NAD(P) binding site [chemical binding]; other site 1341692002025 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 1341692002026 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1341692002027 NADP binding site [chemical binding]; other site 1341692002028 homodimer interface [polypeptide binding]; other site 1341692002029 active site 1341692002030 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1341692002031 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 1341692002032 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 1341692002033 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1341692002034 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692002035 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1341692002036 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1341692002037 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1341692002038 Walker A/P-loop; other site 1341692002039 ATP binding site [chemical binding]; other site 1341692002040 Q-loop/lid; other site 1341692002041 ABC transporter signature motif; other site 1341692002042 Walker B; other site 1341692002043 D-loop; other site 1341692002044 H-loop/switch region; other site 1341692002045 Putative zinc-finger; Region: zf-HC2; pfam13490 1341692002046 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 1341692002047 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692002048 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 1341692002049 DNA binding residues [nucleotide binding] 1341692002050 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1341692002051 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1341692002052 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1341692002053 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 1341692002054 Chloramphenicol acetyltransferase; Region: CAT; smart01059 1341692002055 Rubrerythrin [Energy production and conversion]; Region: COG1592 1341692002056 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1341692002057 binuclear metal center [ion binding]; other site 1341692002058 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 1341692002059 iron binding site [ion binding]; other site 1341692002060 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1341692002061 active site 1341692002062 intersubunit interactions; other site 1341692002063 catalytic residue [active] 1341692002064 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1341692002065 putative formate acetyltransferase 2; Provisional; Region: pflD; PRK09983 1341692002066 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1341692002067 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 1341692002068 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 1341692002069 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1341692002070 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1341692002071 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1341692002072 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1341692002073 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1341692002074 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1341692002075 Interdomain contacts; other site 1341692002076 Cytokine receptor motif; other site 1341692002077 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1341692002078 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1341692002079 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1341692002080 active site 1341692002081 P-loop; other site 1341692002082 phosphorylation site [posttranslational modification] 1341692002083 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1341692002084 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1341692002085 active site 1341692002086 phosphorylation site [posttranslational modification] 1341692002087 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1341692002088 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1341692002089 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1341692002090 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1341692002091 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692002092 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692002093 metal binding site [ion binding]; metal-binding site 1341692002094 active site 1341692002095 I-site; other site 1341692002096 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 1341692002097 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 1341692002098 active site 1341692002099 putative substrate binding pocket [chemical binding]; other site 1341692002100 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1341692002101 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 1341692002102 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1341692002103 active site 1341692002104 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1341692002105 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1341692002106 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1341692002107 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1341692002108 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692002109 Walker A/P-loop; other site 1341692002110 ATP binding site [chemical binding]; other site 1341692002111 Q-loop/lid; other site 1341692002112 ABC transporter signature motif; other site 1341692002113 Walker B; other site 1341692002114 D-loop; other site 1341692002115 H-loop/switch region; other site 1341692002116 TOBE domain; Region: TOBE_2; pfam08402 1341692002117 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1341692002118 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 1341692002119 dimer interface [polypeptide binding]; other site 1341692002120 conserved gate region; other site 1341692002121 putative PBP binding loops; other site 1341692002122 ABC-ATPase subunit interface; other site 1341692002123 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1341692002124 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 1341692002125 dimer interface [polypeptide binding]; other site 1341692002126 conserved gate region; other site 1341692002127 putative PBP binding loops; other site 1341692002128 ABC-ATPase subunit interface; other site 1341692002129 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1341692002130 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 1341692002131 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1341692002132 catalytic residue [active] 1341692002133 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1341692002134 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1341692002135 metal binding site [ion binding]; metal-binding site 1341692002136 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1341692002137 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 1341692002138 nucleotide binding region [chemical binding]; other site 1341692002139 ATP-binding site [chemical binding]; other site 1341692002140 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 1341692002141 ATP binding site [chemical binding]; other site 1341692002142 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1341692002143 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 1341692002144 FeS/SAM binding site; other site 1341692002145 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1341692002146 Isochorismatase family; Region: Isochorismatase; pfam00857 1341692002147 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1341692002148 catalytic triad [active] 1341692002149 conserved cis-peptide bond; other site 1341692002150 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1341692002151 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1341692002152 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1341692002153 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1341692002154 AsnC family; Region: AsnC_trans_reg; pfam01037 1341692002155 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1341692002156 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1341692002157 DNA binding residues [nucleotide binding] 1341692002158 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1341692002159 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1341692002160 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1341692002161 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692002162 Walker A/P-loop; other site 1341692002163 ATP binding site [chemical binding]; other site 1341692002164 Q-loop/lid; other site 1341692002165 ABC transporter signature motif; other site 1341692002166 Walker B; other site 1341692002167 D-loop; other site 1341692002168 H-loop/switch region; other site 1341692002169 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1341692002170 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1341692002171 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1341692002172 Walker A/P-loop; other site 1341692002173 ATP binding site [chemical binding]; other site 1341692002174 Q-loop/lid; other site 1341692002175 ABC transporter signature motif; other site 1341692002176 Walker B; other site 1341692002177 D-loop; other site 1341692002178 H-loop/switch region; other site 1341692002179 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 1341692002180 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1341692002181 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1341692002182 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1341692002183 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1341692002184 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692002185 Walker A/P-loop; other site 1341692002186 ATP binding site [chemical binding]; other site 1341692002187 Q-loop/lid; other site 1341692002188 ABC transporter signature motif; other site 1341692002189 Walker B; other site 1341692002190 D-loop; other site 1341692002191 H-loop/switch region; other site 1341692002192 TOBE domain; Region: TOBE_2; pfam08402 1341692002193 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1341692002194 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 1341692002195 dimer interface [polypeptide binding]; other site 1341692002196 conserved gate region; other site 1341692002197 putative PBP binding loops; other site 1341692002198 ABC-ATPase subunit interface; other site 1341692002199 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 1341692002200 dimer interface [polypeptide binding]; other site 1341692002201 conserved gate region; other site 1341692002202 putative PBP binding loops; other site 1341692002203 ABC-ATPase subunit interface; other site 1341692002204 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1341692002205 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1341692002206 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1341692002207 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 1341692002208 catalytic core [active] 1341692002209 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 1341692002210 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 1341692002211 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 1341692002212 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 1341692002213 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1341692002214 CGNR zinc finger; Region: zf-CGNR; pfam11706 1341692002215 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1341692002216 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1341692002217 Predicted transcriptional regulators [Transcription]; Region: COG1733 1341692002218 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1341692002219 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 1341692002220 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1341692002221 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1341692002222 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692002223 MarR family; Region: MarR_2; pfam12802 1341692002224 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1341692002225 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1341692002226 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1341692002227 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1341692002228 active site 1341692002229 Family description; Region: DsbD_2; pfam13386 1341692002230 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1341692002231 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1341692002232 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1341692002233 LytTr DNA-binding domain; Region: LytTR; smart00850 1341692002234 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 1341692002235 transmembrane helices; other site 1341692002236 Predicted permeases [General function prediction only]; Region: COG0679 1341692002237 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1341692002238 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692002239 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 1341692002240 DNA binding residues [nucleotide binding] 1341692002241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692002242 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692002243 Walker A/P-loop; other site 1341692002244 ATP binding site [chemical binding]; other site 1341692002245 Q-loop/lid; other site 1341692002246 ABC transporter signature motif; other site 1341692002247 Walker B; other site 1341692002248 D-loop; other site 1341692002249 H-loop/switch region; other site 1341692002250 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1341692002251 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 1341692002252 dimer interface [polypeptide binding]; other site 1341692002253 conserved gate region; other site 1341692002254 putative PBP binding loops; other site 1341692002255 ABC-ATPase subunit interface; other site 1341692002256 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 1341692002257 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1341692002258 substrate binding pocket [chemical binding]; other site 1341692002259 membrane-bound complex binding site; other site 1341692002260 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 1341692002261 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 1341692002262 active site 1341692002263 Substrate binding site; other site 1341692002264 Mg++ binding site; other site 1341692002265 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 1341692002266 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692002267 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 1341692002268 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1341692002269 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1341692002270 dimer interface [polypeptide binding]; other site 1341692002271 active site 1341692002272 metal binding site [ion binding]; metal-binding site 1341692002273 short chain dehydrogenase; Provisional; Region: PRK07326 1341692002274 classical (c) SDRs; Region: SDR_c; cd05233 1341692002275 NAD(P) binding site [chemical binding]; other site 1341692002276 active site 1341692002277 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 1341692002278 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1341692002279 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1341692002280 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1341692002281 active site 1341692002282 ATP binding site [chemical binding]; other site 1341692002283 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 1341692002284 putative substrate translocation pore; other site 1341692002285 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1341692002286 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1341692002287 ribonuclease Z; Reviewed; Region: PRK00055 1341692002288 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 1341692002289 non-specific DNA binding site [nucleotide binding]; other site 1341692002290 salt bridge; other site 1341692002291 sequence-specific DNA binding site [nucleotide binding]; other site 1341692002292 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1341692002293 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1341692002294 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1341692002295 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1341692002296 isoaspartyl dipeptidase; Provisional; Region: PRK10657 1341692002297 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 1341692002298 active site 1341692002299 Ferredoxin [Energy production and conversion]; Region: COG1146 1341692002300 4Fe-4S binding domain; Region: Fer4; cl02805 1341692002301 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692002302 dimer interface [polypeptide binding]; other site 1341692002303 putative CheW interface [polypeptide binding]; other site 1341692002304 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1341692002305 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 1341692002306 Walker A motif; other site 1341692002307 ATP binding site [chemical binding]; other site 1341692002308 Walker B motif; other site 1341692002309 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 1341692002310 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 1341692002311 Ligand Binding Site [chemical binding]; other site 1341692002312 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1341692002313 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 1341692002314 active site 1341692002315 dimer interface [polypeptide binding]; other site 1341692002316 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 1341692002317 Ligand Binding Site [chemical binding]; other site 1341692002318 Molecular Tunnel; other site 1341692002319 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 1341692002320 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1341692002321 NodB motif; other site 1341692002322 active site 1341692002323 catalytic site [active] 1341692002324 Zn binding site [ion binding]; other site 1341692002325 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1341692002326 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1341692002327 active site 1341692002328 HIGH motif; other site 1341692002329 nucleotide binding site [chemical binding]; other site 1341692002330 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1341692002331 KMSKS motif; other site 1341692002332 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1341692002333 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 1341692002334 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1341692002335 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1341692002336 DNA binding residues [nucleotide binding] 1341692002337 dimer interface [polypeptide binding]; other site 1341692002338 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 1341692002339 S-adenosylmethionine binding site [chemical binding]; other site 1341692002340 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1341692002341 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 1341692002342 inhibitor-cofactor binding pocket; inhibition site 1341692002343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692002344 catalytic residue [active] 1341692002345 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1341692002346 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 1341692002347 inhibitor-cofactor binding pocket; inhibition site 1341692002348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692002349 catalytic residue [active] 1341692002350 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 1341692002351 Phage integrase family; Region: Phage_integrase; pfam00589 1341692002352 active site 1341692002353 DNA binding site [nucleotide binding] 1341692002354 Int/Topo IB signature motif; other site 1341692002355 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1341692002356 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692002357 Coenzyme A binding pocket [chemical binding]; other site 1341692002358 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1341692002359 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1341692002360 Walker A/P-loop; other site 1341692002361 ATP binding site [chemical binding]; other site 1341692002362 Q-loop/lid; other site 1341692002363 ABC transporter signature motif; other site 1341692002364 Walker B; other site 1341692002365 D-loop; other site 1341692002366 H-loop/switch region; other site 1341692002367 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1341692002368 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1341692002369 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 1341692002370 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 1341692002371 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1341692002372 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1341692002373 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1341692002374 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692002375 Walker A/P-loop; other site 1341692002376 ATP binding site [chemical binding]; other site 1341692002377 Q-loop/lid; other site 1341692002378 ABC transporter signature motif; other site 1341692002379 Walker B; other site 1341692002380 D-loop; other site 1341692002381 H-loop/switch region; other site 1341692002382 Predicted transcriptional regulators [Transcription]; Region: COG1695 1341692002383 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1341692002384 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1341692002385 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1341692002386 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 1341692002387 Uncharacterized conserved protein [Function unknown]; Region: COG2006 1341692002388 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1341692002389 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1341692002390 DNA binding residues [nucleotide binding] 1341692002391 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 1341692002392 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 1341692002393 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 1341692002394 active site 1341692002395 DNA binding site [nucleotide binding] 1341692002396 Int/Topo IB signature motif; other site 1341692002397 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1341692002398 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 1341692002399 FeS/SAM binding site; other site 1341692002400 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692002401 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 1341692002402 dimerization interface [polypeptide binding]; other site 1341692002403 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 1341692002404 dimer interface [polypeptide binding]; other site 1341692002405 phosphorylation site [posttranslational modification] 1341692002406 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 1341692002407 ATP binding site [chemical binding]; other site 1341692002408 Mg2+ binding site [ion binding]; other site 1341692002409 G-X-G motif; other site 1341692002410 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692002411 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 1341692002412 active site 1341692002413 phosphorylation site [posttranslational modification] 1341692002414 intermolecular recognition site; other site 1341692002415 dimerization interface [polypeptide binding]; other site 1341692002416 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 1341692002417 DNA binding site [nucleotide binding] 1341692002418 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1341692002419 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1341692002420 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692002421 Walker A/P-loop; other site 1341692002422 ATP binding site [chemical binding]; other site 1341692002423 Q-loop/lid; other site 1341692002424 ABC transporter signature motif; other site 1341692002425 Walker B; other site 1341692002426 D-loop; other site 1341692002427 H-loop/switch region; other site 1341692002428 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1341692002429 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 1341692002430 Metal-binding active site; metal-binding site 1341692002431 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 1341692002432 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692002433 Walker A/P-loop; other site 1341692002434 ATP binding site [chemical binding]; other site 1341692002435 Q-loop/lid; other site 1341692002436 ABC transporter signature motif; other site 1341692002437 Walker B; other site 1341692002438 D-loop; other site 1341692002439 H-loop/switch region; other site 1341692002440 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 1341692002441 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1341692002442 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1341692002443 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692002444 MarR family; Region: MarR_2; pfam12802 1341692002445 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1341692002446 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692002447 Walker A/P-loop; other site 1341692002448 ATP binding site [chemical binding]; other site 1341692002449 Q-loop/lid; other site 1341692002450 ABC transporter signature motif; other site 1341692002451 Walker B; other site 1341692002452 D-loop; other site 1341692002453 H-loop/switch region; other site 1341692002454 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692002455 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1341692002456 Zn binding site [ion binding]; other site 1341692002457 Helix-turn-helix domain; Region: HTH_17; pfam12728 1341692002458 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692002459 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 1341692002460 active site 1341692002461 phosphorylation site [posttranslational modification] 1341692002462 intermolecular recognition site; other site 1341692002463 dimerization interface [polypeptide binding]; other site 1341692002464 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 1341692002465 DNA binding site [nucleotide binding] 1341692002466 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692002467 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 1341692002468 phosphorylation site [posttranslational modification] 1341692002469 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 1341692002470 ATP binding site [chemical binding]; other site 1341692002471 Mg2+ binding site [ion binding]; other site 1341692002472 G-X-G motif; other site 1341692002473 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692002474 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1341692002475 Walker A/P-loop; other site 1341692002476 ATP binding site [chemical binding]; other site 1341692002477 Q-loop/lid; other site 1341692002478 ABC transporter signature motif; other site 1341692002479 Walker B; other site 1341692002480 D-loop; other site 1341692002481 H-loop/switch region; other site 1341692002482 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1341692002483 FtsX-like permease family; Region: FtsX; pfam02687 1341692002484 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1341692002485 FtsX-like permease family; Region: FtsX; pfam02687 1341692002486 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692002487 Coenzyme A binding pocket [chemical binding]; other site 1341692002488 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 1341692002489 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 1341692002490 hybrid cluster protein; Provisional; Region: PRK05290 1341692002491 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 1341692002492 ACS interaction site; other site 1341692002493 CODH interaction site; other site 1341692002494 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 1341692002495 hybrid metal cluster; other site 1341692002496 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1341692002497 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1341692002498 HTH-like domain; Region: HTH_21; pfam13276 1341692002499 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1341692002500 Integrase core domain; Region: rve; pfam00665 1341692002501 Integrase core domain; Region: rve_2; pfam13333 1341692002502 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1341692002503 Helix-turn-helix domain; Region: HTH_28; pfam13518 1341692002504 Helix-turn-helix domain; Region: HTH_28; pfam13518 1341692002505 GntP family permease; Region: GntP_permease; pfam02447 1341692002506 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1341692002507 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1341692002508 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1341692002509 active site 1341692002510 tetramer interface [polypeptide binding]; other site 1341692002511 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1341692002512 metal binding site [ion binding]; metal-binding site 1341692002513 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1341692002514 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 1341692002515 transmembrane helices; other site 1341692002516 spermidine synthase; Provisional; Region: PRK00811 1341692002517 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 1341692002518 S-adenosylmethionine binding site [chemical binding]; other site 1341692002519 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 1341692002520 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1341692002521 active site 1341692002522 catalytic tetrad [active] 1341692002523 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1341692002524 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1341692002525 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1341692002526 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1341692002527 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1341692002528 inhibitor site; inhibition site 1341692002529 active site 1341692002530 dimer interface [polypeptide binding]; other site 1341692002531 catalytic residue [active] 1341692002532 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 1341692002533 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1341692002534 adenosine deaminase; Provisional; Region: PRK09358 1341692002535 active site 1341692002536 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692002537 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692002538 metal binding site [ion binding]; metal-binding site 1341692002539 active site 1341692002540 I-site; other site 1341692002541 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1341692002542 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 1341692002543 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 1341692002544 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1341692002545 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1341692002546 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1341692002547 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1341692002548 Ligand Binding Site [chemical binding]; other site 1341692002549 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1341692002550 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1341692002551 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1341692002552 catalytic residue [active] 1341692002553 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1341692002554 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1341692002555 NodB motif; other site 1341692002556 active site 1341692002557 catalytic site [active] 1341692002558 Zn binding site [ion binding]; other site 1341692002559 A short protein domain of unknown function; Region: IDEAL; smart00914 1341692002560 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1341692002561 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1341692002562 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1341692002563 Part of AAA domain; Region: AAA_19; pfam13245 1341692002564 Family description; Region: UvrD_C_2; pfam13538 1341692002565 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1341692002566 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 1341692002567 S-adenosylmethionine binding site [chemical binding]; other site 1341692002568 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1341692002569 Domain of unknown function DUF21; Region: DUF21; pfam01595 1341692002570 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 1341692002571 Transporter associated domain; Region: CorC_HlyC; pfam03471 1341692002572 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 1341692002573 Accessory gene regulator B; Region: AgrB; pfam04647 1341692002574 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1341692002575 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 1341692002576 ATP binding site [chemical binding]; other site 1341692002577 Mg2+ binding site [ion binding]; other site 1341692002578 G-X-G motif; other site 1341692002579 Staphylococcal AgrD protein; Region: AgrD; cl05477 1341692002580 Sensory domain found in PocR; Region: PocR; pfam10114 1341692002581 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692002582 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692002583 metal binding site [ion binding]; metal-binding site 1341692002584 active site 1341692002585 I-site; other site 1341692002586 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 1341692002587 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1341692002588 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 1341692002589 RNA binding site [nucleotide binding]; other site 1341692002590 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 1341692002591 RNA binding site [nucleotide binding]; other site 1341692002592 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 1341692002593 RNA binding site [nucleotide binding]; other site 1341692002594 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 1341692002595 RNA binding site [nucleotide binding]; other site 1341692002596 domain interface; other site 1341692002597 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 1341692002598 putative active site pocket [active] 1341692002599 cleavage site 1341692002600 Predicted membrane protein [Function unknown]; Region: COG4684 1341692002601 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1341692002602 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1341692002603 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13639 1341692002604 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1341692002605 Walker A/P-loop; other site 1341692002606 ATP binding site [chemical binding]; other site 1341692002607 Q-loop/lid; other site 1341692002608 ABC transporter signature motif; other site 1341692002609 Walker B; other site 1341692002610 D-loop; other site 1341692002611 H-loop/switch region; other site 1341692002612 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 1341692002613 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692002614 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692002615 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692002616 Protein of unknown function (DUF503); Region: DUF503; pfam04456 1341692002617 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 1341692002618 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 1341692002619 nickel binding site [ion binding]; other site 1341692002620 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1341692002621 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 1341692002622 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1341692002623 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1341692002624 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1341692002625 substrate binding pocket [chemical binding]; other site 1341692002626 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1341692002627 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1341692002628 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 1341692002629 D-galactonate transporter; Region: 2A0114; TIGR00893 1341692002630 putative substrate translocation pore; other site 1341692002631 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 1341692002632 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1341692002633 putative substrate translocation pore; other site 1341692002634 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1341692002635 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1341692002636 active site 1341692002637 FMN binding site [chemical binding]; other site 1341692002638 substrate binding site [chemical binding]; other site 1341692002639 putative catalytic residue [active] 1341692002640 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1341692002641 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1341692002642 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1341692002643 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1341692002644 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1341692002645 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1341692002646 active site 1341692002647 FMN binding site [chemical binding]; other site 1341692002648 substrate binding site [chemical binding]; other site 1341692002649 putative catalytic residue [active] 1341692002650 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1341692002651 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1341692002652 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 1341692002653 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1341692002654 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1341692002655 shikimate binding site; other site 1341692002656 NAD(P) binding site [chemical binding]; other site 1341692002657 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1341692002658 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1341692002659 active site 1341692002660 catalytic residue [active] 1341692002661 dimer interface [polypeptide binding]; other site 1341692002662 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692002663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692002664 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 1341692002665 putative dimerization interface [polypeptide binding]; other site 1341692002666 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 1341692002667 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1341692002668 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1341692002669 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1341692002670 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1341692002671 Type II/IV secretion system protein; Region: T2SE; pfam00437 1341692002672 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1341692002673 ATP binding site [chemical binding]; other site 1341692002674 Walker A motif; other site 1341692002675 hexamer interface [polypeptide binding]; other site 1341692002676 Walker B motif; other site 1341692002677 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 1341692002678 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1341692002679 active site 1341692002680 phosphorylation site [posttranslational modification] 1341692002681 intermolecular recognition site; other site 1341692002682 dimerization interface [polypeptide binding]; other site 1341692002683 AAA domain; Region: AAA_31; pfam13614 1341692002684 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1341692002685 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1341692002686 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1341692002687 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1341692002688 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1341692002689 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 1341692002690 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1341692002691 TadE-like protein; Region: TadE; pfam07811 1341692002692 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1341692002693 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 1341692002694 active site 1341692002695 phosphorylation site [posttranslational modification] 1341692002696 intermolecular recognition site; other site 1341692002697 dimerization interface [polypeptide binding]; other site 1341692002698 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 1341692002699 DNA binding residues [nucleotide binding] 1341692002700 dimerization interface [polypeptide binding]; other site 1341692002701 Sensor protein DegS; Region: DegS; pfam05384 1341692002702 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1341692002703 Histidine kinase; Region: HisKA_3; pfam07730 1341692002704 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 1341692002705 ATP binding site [chemical binding]; other site 1341692002706 Mg2+ binding site [ion binding]; other site 1341692002707 G-X-G motif; other site 1341692002708 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1341692002709 Rubrerythrin [Energy production and conversion]; Region: COG1592 1341692002710 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 1341692002711 diiron binding motif [ion binding]; other site 1341692002712 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1341692002713 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1341692002714 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1341692002715 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1341692002716 Walker A/P-loop; other site 1341692002717 ATP binding site [chemical binding]; other site 1341692002718 Q-loop/lid; other site 1341692002719 ABC transporter signature motif; other site 1341692002720 Walker B; other site 1341692002721 D-loop; other site 1341692002722 H-loop/switch region; other site 1341692002723 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1341692002724 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 1341692002725 dimer interface [polypeptide binding]; other site 1341692002726 conserved gate region; other site 1341692002727 putative PBP binding loops; other site 1341692002728 ABC-ATPase subunit interface; other site 1341692002729 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 1341692002730 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1341692002731 substrate binding pocket [chemical binding]; other site 1341692002732 membrane-bound complex binding site; other site 1341692002733 hinge residues; other site 1341692002734 FOG: CBS domain [General function prediction only]; Region: COG0517 1341692002735 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 1341692002736 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1341692002737 active site 1341692002738 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1341692002739 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1341692002740 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1341692002741 putative active site [active] 1341692002742 catalytic site [active] 1341692002743 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1341692002744 putative active site [active] 1341692002745 catalytic site [active] 1341692002746 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 1341692002747 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 1341692002748 active site 1341692002749 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1341692002750 substrate binding site [chemical binding]; other site 1341692002751 metal binding site [ion binding]; metal-binding site 1341692002752 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1341692002753 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1341692002754 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1341692002755 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1341692002756 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1341692002757 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1341692002758 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1341692002759 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1341692002760 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1341692002761 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 1341692002762 ADP binding site [chemical binding]; other site 1341692002763 magnesium binding site [ion binding]; other site 1341692002764 putative shikimate binding site; other site 1341692002765 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1341692002766 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1341692002767 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1341692002768 shikimate binding site; other site 1341692002769 NAD(P) binding site [chemical binding]; other site 1341692002770 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 1341692002771 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1341692002772 Prephenate dehydratase; Region: PDT; pfam00800 1341692002773 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 1341692002774 putative L-Phe binding site [chemical binding]; other site 1341692002775 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1341692002776 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1341692002777 Tetramer interface [polypeptide binding]; other site 1341692002778 active site 1341692002779 FMN-binding site [chemical binding]; other site 1341692002780 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1341692002781 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 1341692002782 hinge; other site 1341692002783 active site 1341692002784 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1341692002785 active site 1341692002786 dimer interface [polypeptide binding]; other site 1341692002787 metal binding site [ion binding]; metal-binding site 1341692002788 prephenate dehydrogenase; Validated; Region: PRK08507 1341692002789 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 1341692002790 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 1341692002791 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 1341692002792 CHAP domain; Region: CHAP; cl17642 1341692002793 Bacterial SH3 domain; Region: SH3_3; pfam08239 1341692002794 Bacterial SH3 domain; Region: SH3_3; cl17532 1341692002795 Bacterial SH3 domain; Region: SH3_3; pfam08239 1341692002796 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1341692002797 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 1341692002798 active site 1341692002799 phosphorylation site [posttranslational modification] 1341692002800 intermolecular recognition site; other site 1341692002801 dimerization interface [polypeptide binding]; other site 1341692002802 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1341692002803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1341692002804 NAD(P) binding site [chemical binding]; other site 1341692002805 active site 1341692002806 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 1341692002807 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1341692002808 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1341692002809 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692002810 Zn2+ binding site [ion binding]; other site 1341692002811 Mg2+ binding site [ion binding]; other site 1341692002812 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1341692002813 Sensory domain found in PocR; Region: PocR; pfam10114 1341692002814 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692002815 dimer interface [polypeptide binding]; other site 1341692002816 putative CheW interface [polypeptide binding]; other site 1341692002817 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 1341692002818 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692002819 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1341692002820 Coenzyme A binding pocket [chemical binding]; other site 1341692002821 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1341692002822 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 1341692002823 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 1341692002824 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1341692002825 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692002826 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1341692002827 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692002828 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1341692002829 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 1341692002830 dimer interface [polypeptide binding]; other site 1341692002831 PYR/PP interface [polypeptide binding]; other site 1341692002832 TPP binding site [chemical binding]; other site 1341692002833 substrate binding site [chemical binding]; other site 1341692002834 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1341692002835 Domain of unknown function; Region: EKR; pfam10371 1341692002836 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1341692002837 4Fe-4S binding domain; Region: Fer4; pfam00037 1341692002838 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1341692002839 TPP-binding site [chemical binding]; other site 1341692002840 dimer interface [polypeptide binding]; other site 1341692002841 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 1341692002842 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1341692002843 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 1341692002844 Interdomain contacts; other site 1341692002845 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1341692002846 Predicted ATPase [General function prediction only]; Region: COG3910 1341692002847 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692002848 ATP-binding cassette domain of non-transporter proteins; Region: ABC_Class2; cd03227 1341692002849 Walker A/P-loop; other site 1341692002850 Walker A/P-loop; other site 1341692002851 ATP binding site [chemical binding]; other site 1341692002852 ATP binding site [chemical binding]; other site 1341692002853 Q-loop/lid; other site 1341692002854 ABC transporter signature motif; other site 1341692002855 Walker B; other site 1341692002856 D-loop; other site 1341692002857 H-loop/switch region; other site 1341692002858 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1341692002859 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 1341692002860 putative DNA binding site [nucleotide binding]; other site 1341692002861 putative Zn2+ binding site [ion binding]; other site 1341692002862 Bacterial transcriptional regulator; Region: IclR; pfam01614 1341692002863 aspartate aminotransferase; Provisional; Region: PRK06348 1341692002864 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 1341692002865 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692002866 homodimer interface [polypeptide binding]; other site 1341692002867 catalytic residue [active] 1341692002868 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1341692002869 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 1341692002870 Nitroreductase family; Region: Nitroreductase; pfam00881 1341692002871 FMN binding site [chemical binding]; other site 1341692002872 dimer interface [polypeptide binding]; other site 1341692002873 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1341692002874 active site 1341692002875 catalytic site [active] 1341692002876 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1341692002877 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1341692002878 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1341692002879 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692002880 DNA-binding site [nucleotide binding]; DNA binding site 1341692002881 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 1341692002882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692002883 homodimer interface [polypeptide binding]; other site 1341692002884 catalytic residue [active] 1341692002885 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1341692002886 aspartate racemase; Region: asp_race; TIGR00035 1341692002887 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 1341692002888 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1341692002889 putative substrate translocation pore; other site 1341692002890 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 1341692002891 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1341692002892 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1341692002893 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1341692002894 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1341692002895 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 1341692002896 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1341692002897 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1341692002898 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1341692002899 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 1341692002900 active site residue [active] 1341692002901 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 1341692002902 CPxP motif; other site 1341692002903 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 1341692002904 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1341692002905 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 1341692002906 S-adenosylmethionine binding site [chemical binding]; other site 1341692002907 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 1341692002908 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 1341692002909 dimerization interface [polypeptide binding]; other site 1341692002910 putative DNA binding site [nucleotide binding]; other site 1341692002911 putative Zn2+ binding site [ion binding]; other site 1341692002912 Predicted permeases [General function prediction only]; Region: COG0701 1341692002913 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 1341692002914 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 1341692002915 dimerization interface [polypeptide binding]; other site 1341692002916 putative DNA binding site [nucleotide binding]; other site 1341692002917 putative Zn2+ binding site [ion binding]; other site 1341692002918 Predicted membrane protein [Function unknown]; Region: COG2323 1341692002919 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1341692002920 Transposase IS200 like; Region: Y1_Tnp; cl00848 1341692002921 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692002922 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 1341692002923 active site 1341692002924 phosphorylation site [posttranslational modification] 1341692002925 intermolecular recognition site; other site 1341692002926 dimerization interface [polypeptide binding]; other site 1341692002927 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 1341692002928 DNA binding site [nucleotide binding] 1341692002929 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1341692002930 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 1341692002931 dimerization interface [polypeptide binding]; other site 1341692002932 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 1341692002933 dimer interface [polypeptide binding]; other site 1341692002934 phosphorylation site [posttranslational modification] 1341692002935 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 1341692002936 ATP binding site [chemical binding]; other site 1341692002937 Mg2+ binding site [ion binding]; other site 1341692002938 G-X-G motif; other site 1341692002939 Short C-terminal domain; Region: SHOCT; pfam09851 1341692002940 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1341692002941 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1341692002942 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1341692002943 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1341692002944 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1341692002945 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1341692002946 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 1341692002947 active site 1341692002948 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1341692002949 catalytic triad [active] 1341692002950 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1341692002951 active site 1341692002952 oxyanion hole [active] 1341692002953 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1341692002954 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 1341692002955 Peptidase family M50; Region: Peptidase_M50; pfam02163 1341692002956 active site 1341692002957 putative substrate binding region [chemical binding]; other site 1341692002958 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 1341692002959 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1341692002960 PhoH-like protein; Region: PhoH; pfam02562 1341692002961 AAA domain; Region: AAA_22; pfam13401 1341692002962 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1341692002963 putative active site [active] 1341692002964 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1341692002965 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692002966 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692002967 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692002968 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1341692002969 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1341692002970 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 1341692002971 active site 1341692002972 oxyanion hole [active] 1341692002973 catalytic triad [active] 1341692002974 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 1341692002975 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1341692002976 E-class dimer interface [polypeptide binding]; other site 1341692002977 P-class dimer interface [polypeptide binding]; other site 1341692002978 active site 1341692002979 Cu2+ binding site [ion binding]; other site 1341692002980 Zn2+ binding site [ion binding]; other site 1341692002981 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 1341692002982 Small acid-soluble spore protein H family; Region: SspH; cl06949 1341692002983 short chain dehydrogenase; Provisional; Region: PRK06701 1341692002984 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1341692002985 NAD binding site [chemical binding]; other site 1341692002986 metal binding site [ion binding]; metal-binding site 1341692002987 active site 1341692002988 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1341692002989 Enoate reductase (ER)-like FMN-binding domain. Enoate reductase catalyzes the NADH-dependent reduction of carbon-carbon double bonds of several molecules, including nonactivated 2-enoates, alpha,beta-unsaturated aldehydes, cyclic ketones, and...; Region: ER_like_FMN; cd02931 1341692002990 putative active site [active] 1341692002991 putative FMN binding site [chemical binding]; other site 1341692002992 putative substrate binding site [chemical binding]; other site 1341692002993 putative catalytic residue [active] 1341692002994 putative 4Fe-4S cluster binding site [ion binding]; other site 1341692002995 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1341692002996 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1341692002997 Predicted transcriptional regulators [Transcription]; Region: COG1695 1341692002998 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1341692002999 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1341692003000 PrcB C-terminal; Region: PrcB_C; pfam14343 1341692003001 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 1341692003002 RNA polymerase sigma factor; Provisional; Region: PRK11924 1341692003003 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692003004 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1341692003005 DNA binding residues [nucleotide binding] 1341692003006 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692003007 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692003008 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692003009 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1341692003010 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 1341692003011 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 1341692003012 active site 1341692003013 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1341692003014 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 1341692003015 nucleoside/Zn binding site; other site 1341692003016 dimer interface [polypeptide binding]; other site 1341692003017 catalytic motif [active] 1341692003018 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1341692003019 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1341692003020 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1341692003021 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1341692003022 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1341692003023 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1341692003024 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1341692003025 peptidase; Reviewed; Region: PRK13004 1341692003026 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 1341692003027 putative metal binding site [ion binding]; other site 1341692003028 putative dimer interface [polypeptide binding]; other site 1341692003029 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1341692003030 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 1341692003031 active site 1341692003032 putative substrate binding pocket [chemical binding]; other site 1341692003033 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 1341692003034 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1341692003035 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 1341692003036 TM-ABC transporter signature motif; other site 1341692003037 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1341692003038 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 1341692003039 TM-ABC transporter signature motif; other site 1341692003040 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1341692003041 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1341692003042 Walker A/P-loop; other site 1341692003043 ATP binding site [chemical binding]; other site 1341692003044 Q-loop/lid; other site 1341692003045 ABC transporter signature motif; other site 1341692003046 Walker B; other site 1341692003047 D-loop; other site 1341692003048 H-loop/switch region; other site 1341692003049 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1341692003050 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1341692003051 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1341692003052 putative ligand binding site [chemical binding]; other site 1341692003053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1341692003054 YheO-like PAS domain; Region: PAS_6; pfam08348 1341692003055 HTH domain; Region: HTH_22; pfam13309 1341692003056 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1341692003057 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1341692003058 active site 1341692003059 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1341692003060 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1341692003061 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 1341692003062 active site 1341692003063 Response regulator receiver domain; Region: Response_reg; pfam00072 1341692003064 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 1341692003065 active site 1341692003066 phosphorylation site [posttranslational modification] 1341692003067 intermolecular recognition site; other site 1341692003068 dimerization interface [polypeptide binding]; other site 1341692003069 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1341692003070 GAF domain; Region: GAF; pfam01590 1341692003071 PAS domain; Region: PAS_9; pfam13426 1341692003072 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1341692003073 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 1341692003074 dimer interface [polypeptide binding]; other site 1341692003075 phosphorylation site [posttranslational modification] 1341692003076 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 1341692003077 ATP binding site [chemical binding]; other site 1341692003078 Mg2+ binding site [ion binding]; other site 1341692003079 G-X-G motif; other site 1341692003080 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1341692003081 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 1341692003082 active site 1341692003083 phosphorylation site [posttranslational modification] 1341692003084 intermolecular recognition site; other site 1341692003085 dimerization interface [polypeptide binding]; other site 1341692003086 Response regulator receiver domain; Region: Response_reg; pfam00072 1341692003087 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 1341692003088 active site 1341692003089 phosphorylation site [posttranslational modification] 1341692003090 intermolecular recognition site; other site 1341692003091 dimerization interface [polypeptide binding]; other site 1341692003092 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 1341692003093 putative binding surface; other site 1341692003094 active site 1341692003095 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1341692003096 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692003097 Zn2+ binding site [ion binding]; other site 1341692003098 Mg2+ binding site [ion binding]; other site 1341692003099 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1341692003100 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 1341692003101 active site 1341692003102 phosphorylation site [posttranslational modification] 1341692003103 intermolecular recognition site; other site 1341692003104 dimerization interface [polypeptide binding]; other site 1341692003105 LytTr DNA-binding domain; Region: LytTR; smart00850 1341692003106 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1341692003107 ATP binding site [chemical binding]; other site 1341692003108 Mg2+ binding site [ion binding]; other site 1341692003109 G-X-G motif; other site 1341692003110 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1341692003111 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1341692003112 NAD binding site [chemical binding]; other site 1341692003113 ligand binding site [chemical binding]; other site 1341692003114 catalytic site [active] 1341692003115 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692003116 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 1341692003117 dimer interface [polypeptide binding]; other site 1341692003118 phosphorylation site [posttranslational modification] 1341692003119 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 1341692003120 ATP binding site [chemical binding]; other site 1341692003121 Mg2+ binding site [ion binding]; other site 1341692003122 G-X-G motif; other site 1341692003123 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 1341692003124 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692003125 active site 1341692003126 phosphorylation site [posttranslational modification] 1341692003127 intermolecular recognition site; other site 1341692003128 dimerization interface [polypeptide binding]; other site 1341692003129 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 1341692003130 DNA binding site [nucleotide binding] 1341692003131 FtsX-like permease family; Region: FtsX; pfam02687 1341692003132 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692003133 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1341692003134 Walker A/P-loop; other site 1341692003135 ATP binding site [chemical binding]; other site 1341692003136 Q-loop/lid; other site 1341692003137 ABC transporter signature motif; other site 1341692003138 Walker B; other site 1341692003139 D-loop; other site 1341692003140 H-loop/switch region; other site 1341692003141 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 1341692003142 ATP binding site [chemical binding]; other site 1341692003143 putative Mg++ binding site [ion binding]; other site 1341692003144 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 1341692003145 nucleotide binding region [chemical binding]; other site 1341692003146 ATP-binding site [chemical binding]; other site 1341692003147 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1341692003148 ATP binding site [chemical binding]; other site 1341692003149 Mg2+ binding site [ion binding]; other site 1341692003150 G-X-G motif; other site 1341692003151 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1341692003152 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 1341692003153 active site 1341692003154 phosphorylation site [posttranslational modification] 1341692003155 intermolecular recognition site; other site 1341692003156 dimerization interface [polypeptide binding]; other site 1341692003157 LytTr DNA-binding domain; Region: LytTR; pfam04397 1341692003158 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1341692003159 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1341692003160 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1341692003161 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1341692003162 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 1341692003163 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1341692003164 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1341692003165 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1341692003166 L-aspartate oxidase; Provisional; Region: PRK06175 1341692003167 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 1341692003168 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1341692003169 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 1341692003170 catalytic loop [active] 1341692003171 iron binding site [ion binding]; other site 1341692003172 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 1341692003173 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 1341692003174 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1341692003175 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 1341692003176 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1341692003177 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1341692003178 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1341692003179 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 1341692003180 FeS/SAM binding site; other site 1341692003181 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 1341692003182 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1341692003183 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 1341692003184 Lamin Tail Domain; Region: LTD; pfam00932 1341692003185 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 1341692003186 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692003187 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 1341692003188 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692003189 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692003190 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 1341692003191 Phage Tail Collar Domain; Region: Collar; pfam07484 1341692003192 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1341692003193 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692003194 Coenzyme A binding pocket [chemical binding]; other site 1341692003195 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1341692003196 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1341692003197 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1341692003198 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 1341692003199 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1341692003200 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692003201 dimer interface [polypeptide binding]; other site 1341692003202 putative CheW interface [polypeptide binding]; other site 1341692003203 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1341692003204 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1341692003205 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692003206 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 1341692003207 Cache domain; Region: Cache_1; pfam02743 1341692003208 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692003209 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692003210 dimer interface [polypeptide binding]; other site 1341692003211 putative CheW interface [polypeptide binding]; other site 1341692003212 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1341692003213 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1341692003214 PrpF protein; Region: PrpF; pfam04303 1341692003215 aconitate hydratase; Validated; Region: PRK07229 1341692003216 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1341692003217 substrate binding site [chemical binding]; other site 1341692003218 ligand binding site [chemical binding]; other site 1341692003219 Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course...; Region: AcnA_Bact_Swivel; cd01579 1341692003220 substrate binding site [chemical binding]; other site 1341692003221 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 1341692003222 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1341692003223 citrate lyase, beta subunit; Region: citE; TIGR01588 1341692003224 citrate lyase subunit gamma; Provisional; Region: PRK13253 1341692003225 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1341692003226 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1341692003227 putative NAD(P) binding site [chemical binding]; other site 1341692003228 Predicted transcriptional regulators [Transcription]; Region: COG1725 1341692003229 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692003230 DNA-binding site [nucleotide binding]; DNA binding site 1341692003231 FCD domain; Region: FCD; pfam07729 1341692003232 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 1341692003233 putative substrate translocation pore; other site 1341692003234 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1341692003235 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 1341692003236 active site 1341692003237 putative substrate binding pocket [chemical binding]; other site 1341692003238 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 1341692003239 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 1341692003240 active site 1341692003241 catalytic tetrad [active] 1341692003242 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1341692003243 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692003244 Coenzyme A binding pocket [chemical binding]; other site 1341692003245 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692003246 dimer interface [polypeptide binding]; other site 1341692003247 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1341692003248 putative CheW interface [polypeptide binding]; other site 1341692003249 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1341692003250 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1341692003251 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692003252 putative CheW interface [polypeptide binding]; other site 1341692003253 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1341692003254 YoaP-like; Region: YoaP; pfam14268 1341692003255 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692003256 dimer interface [polypeptide binding]; other site 1341692003257 putative CheW interface [polypeptide binding]; other site 1341692003258 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 1341692003259 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 1341692003260 putative ligand binding site [chemical binding]; other site 1341692003261 putative NAD binding site [chemical binding]; other site 1341692003262 putative catalytic site [active] 1341692003263 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1341692003264 L-serine binding site [chemical binding]; other site 1341692003265 ACT domain interface; other site 1341692003266 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1341692003267 synthetase active site [active] 1341692003268 NTP binding site [chemical binding]; other site 1341692003269 metal binding site [ion binding]; metal-binding site 1341692003270 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692003271 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 1341692003272 active site 1341692003273 phosphorylation site [posttranslational modification] 1341692003274 intermolecular recognition site; other site 1341692003275 dimerization interface [polypeptide binding]; other site 1341692003276 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 1341692003277 DNA binding site [nucleotide binding] 1341692003278 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 1341692003279 dimer interface [polypeptide binding]; other site 1341692003280 phosphorylation site [posttranslational modification] 1341692003281 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 1341692003282 ATP binding site [chemical binding]; other site 1341692003283 Mg2+ binding site [ion binding]; other site 1341692003284 G-X-G motif; other site 1341692003285 PAS domain; Region: PAS_9; pfam13426 1341692003286 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 1341692003287 PAS domain; Region: PAS_9; pfam13426 1341692003288 putative active site [active] 1341692003289 heme pocket [chemical binding]; other site 1341692003290 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692003291 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692003292 metal binding site [ion binding]; metal-binding site 1341692003293 active site 1341692003294 I-site; other site 1341692003295 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 1341692003296 Domain of unknown function (DUF336); Region: DUF336; cl01249 1341692003297 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692003298 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692003299 metal binding site [ion binding]; metal-binding site 1341692003300 active site 1341692003301 I-site; other site 1341692003302 DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]; Region: PolC; COG2176 1341692003303 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1341692003304 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 1341692003305 generic binding surface II; other site 1341692003306 generic binding surface I; other site 1341692003307 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1341692003308 active site 1341692003309 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1341692003310 active site 1341692003311 catalytic site [active] 1341692003312 substrate binding site [chemical binding]; other site 1341692003313 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1341692003314 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1341692003315 conserved cys residue [active] 1341692003316 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1341692003317 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 1341692003318 active site 1341692003319 metal binding site [ion binding]; metal-binding site 1341692003320 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1341692003321 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1341692003322 active site 1341692003323 FMN binding site [chemical binding]; other site 1341692003324 substrate binding site [chemical binding]; other site 1341692003325 putative catalytic residue [active] 1341692003326 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1341692003327 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1341692003328 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1341692003329 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1341692003330 active site 1341692003331 metal binding site [ion binding]; metal-binding site 1341692003332 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 1341692003333 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1341692003334 putative substrate translocation pore; other site 1341692003335 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1341692003336 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1341692003337 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1341692003338 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1341692003339 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 1341692003340 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1341692003341 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1341692003342 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1341692003343 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692003344 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692003345 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692003346 Putative amidase domain; Region: Amidase_6; pfam12671 1341692003347 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 1341692003348 Fic/DOC family; Region: Fic; cl00960 1341692003349 HTH-like domain; Region: HTH_21; pfam13276 1341692003350 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1341692003351 Integrase core domain; Region: rve; pfam00665 1341692003352 Integrase core domain; Region: rve_2; pfam13333 1341692003353 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1341692003354 Helix-turn-helix domain; Region: HTH_28; pfam13518 1341692003355 Helix-turn-helix domain; Region: HTH_28; pfam13518 1341692003356 Bacterial Ig-like domain; Region: Big_5; pfam13205 1341692003357 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 1341692003358 NTR_like domain; a beta barrel with an oligosaccharide/oligonucleotide-binding fold found in netrins, complement proteins, tissue inhibitors of metalloproteases (TIMP), and procollagen C-proteinase enhancers (PCOLCE), amongst others. In netrins, the...; Region: NTR_like; cl02512 1341692003359 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1341692003360 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692003361 Walker A/P-loop; other site 1341692003362 ATP binding site [chemical binding]; other site 1341692003363 Q-loop/lid; other site 1341692003364 ABC transporter signature motif; other site 1341692003365 Walker B; other site 1341692003366 D-loop; other site 1341692003367 H-loop/switch region; other site 1341692003368 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1341692003369 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 1341692003370 ABC-ATPase subunit interface; other site 1341692003371 dimer interface [polypeptide binding]; other site 1341692003372 putative PBP binding regions; other site 1341692003373 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1341692003374 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 1341692003375 homodimer interface [polypeptide binding]; other site 1341692003376 Walker A motif; other site 1341692003377 ATP binding site [chemical binding]; other site 1341692003378 hydroxycobalamin binding site [chemical binding]; other site 1341692003379 Walker B motif; other site 1341692003380 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 1341692003381 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1341692003382 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1341692003383 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1341692003384 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 1341692003385 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 1341692003386 active site 1341692003387 C-terminal domain interface [polypeptide binding]; other site 1341692003388 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 1341692003389 active site 1341692003390 N-terminal domain interface [polypeptide binding]; other site 1341692003391 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1341692003392 active site 1341692003393 SAM binding site [chemical binding]; other site 1341692003394 homodimer interface [polypeptide binding]; other site 1341692003395 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 1341692003396 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1341692003397 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1341692003398 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1341692003399 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1341692003400 active site 1341692003401 SAM binding site [chemical binding]; other site 1341692003402 homodimer interface [polypeptide binding]; other site 1341692003403 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1341692003404 active site 1341692003405 SAM binding site [chemical binding]; other site 1341692003406 homodimer interface [polypeptide binding]; other site 1341692003407 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1341692003408 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 1341692003409 S-adenosylmethionine binding site [chemical binding]; other site 1341692003410 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1341692003411 active site 1341692003412 putative homodimer interface [polypeptide binding]; other site 1341692003413 SAM binding site [chemical binding]; other site 1341692003414 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1341692003415 precorrin-8X methylmutase; Validated; Region: cbiC; PRK05575 1341692003416 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 1341692003417 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1341692003418 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1341692003419 putative dimer interface [polypeptide binding]; other site 1341692003420 active site pocket [active] 1341692003421 putative cataytic base [active] 1341692003422 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1341692003423 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 1341692003424 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1341692003425 catalytic triad [active] 1341692003426 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 1341692003427 dimer interface [polypeptide binding]; other site 1341692003428 active site 1341692003429 Schiff base residues; other site 1341692003430 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1341692003431 active site 1341692003432 SAM binding site [chemical binding]; other site 1341692003433 homodimer interface [polypeptide binding]; other site 1341692003434 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1341692003435 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 1341692003436 active site 1341692003437 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1341692003438 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; cl17708 1341692003439 domain interfaces; other site 1341692003440 active site 1341692003441 precorrin-2 dehydrogenase; Provisional; Region: PRK05562 1341692003442 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1341692003443 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 1341692003444 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 1341692003445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692003446 homodimer interface [polypeptide binding]; other site 1341692003447 catalytic residue [active] 1341692003448 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1341692003449 cobyric acid synthase; Provisional; Region: PRK00784 1341692003450 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 1341692003451 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1341692003452 catalytic triad [active] 1341692003453 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1341692003454 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1341692003455 Walker A/P-loop; other site 1341692003456 ATP binding site [chemical binding]; other site 1341692003457 Q-loop/lid; other site 1341692003458 ABC transporter signature motif; other site 1341692003459 Walker B; other site 1341692003460 D-loop; other site 1341692003461 H-loop/switch region; other site 1341692003462 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1341692003463 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 1341692003464 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 1341692003465 dimer interface [polypeptide binding]; other site 1341692003466 active site 1341692003467 ADP-ribose binding site [chemical binding]; other site 1341692003468 nudix motif; other site 1341692003469 metal binding site [ion binding]; metal-binding site 1341692003470 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692003471 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1341692003472 DNA-binding site [nucleotide binding]; DNA binding site 1341692003473 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 1341692003474 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692003475 homodimer interface [polypeptide binding]; other site 1341692003476 catalytic residue [active] 1341692003477 Predicted membrane protein [Function unknown]; Region: COG1511 1341692003478 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1341692003479 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 1341692003480 Predicted membrane protein [Function unknown]; Region: COG1511 1341692003481 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1341692003482 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1341692003483 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1341692003484 active site 1341692003485 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 1341692003486 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1341692003487 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1341692003488 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1341692003489 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1341692003490 alanine racemase; Reviewed; Region: alr; PRK00053 1341692003491 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1341692003492 active site 1341692003493 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1341692003494 dimer interface [polypeptide binding]; other site 1341692003495 substrate binding site [chemical binding]; other site 1341692003496 catalytic residues [active] 1341692003497 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1341692003498 EamA-like transporter family; Region: EamA; pfam00892 1341692003499 EamA-like transporter family; Region: EamA; pfam00892 1341692003500 Uncharacterized family 1; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_1; cd10158 1341692003501 putative homodimer interface [polypeptide binding]; other site 1341692003502 putative homotetramer interface [polypeptide binding]; other site 1341692003503 putative metal binding site [ion binding]; other site 1341692003504 putative homodimer-homodimer interface [polypeptide binding]; other site 1341692003505 putative allosteric switch controlling residues; other site 1341692003506 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1341692003507 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1341692003508 Beta-Casp domain; Region: Beta-Casp; smart01027 1341692003509 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1341692003510 Putative amidase domain; Region: Amidase_6; pfam12671 1341692003511 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1341692003512 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 1341692003513 FMN binding site [chemical binding]; other site 1341692003514 dimer interface [polypeptide binding]; other site 1341692003515 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1341692003516 Putative Lactate dehydrogenase and (R)-2-Hydroxyglutarate Dehydrogenase-like proteins, NAD-binding and catalytic domains; Region: HGDH_LDH_like; cd12185 1341692003517 putative ligand binding site [chemical binding]; other site 1341692003518 putative NAD binding site [chemical binding]; other site 1341692003519 catalytic site [active] 1341692003520 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 1341692003521 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 1341692003522 Protein of unknown function (DUF975); Region: DUF975; cl10504 1341692003523 Protein of unknown function (DUF975); Region: DUF975; cl10504 1341692003524 drug efflux system protein MdtG; Provisional; Region: PRK09874 1341692003525 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 1341692003526 putative substrate translocation pore; other site 1341692003527 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1341692003528 active site 1341692003529 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1341692003530 Predicted transcriptional regulators [Transcription]; Region: COG1733 1341692003531 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1341692003532 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 1341692003533 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1341692003534 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1341692003535 TfoX N-terminal domain; Region: TfoX_N; cl17592 1341692003536 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1341692003537 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692003538 Coenzyme A binding pocket [chemical binding]; other site 1341692003539 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 1341692003540 S-adenosylmethionine binding site [chemical binding]; other site 1341692003541 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1341692003542 YvrJ protein family; Region: YvrJ; pfam12841 1341692003543 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 1341692003544 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 1341692003545 EamA-like transporter family; Region: EamA; pfam00892 1341692003546 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1341692003547 EamA-like transporter family; Region: EamA; pfam00892 1341692003548 Abi-like protein; Region: Abi_2; cl01988 1341692003549 Abi-like protein; Region: Abi_2; pfam07751 1341692003550 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1341692003551 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 1341692003552 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692003553 MarR family; Region: MarR_2; pfam12802 1341692003554 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1341692003555 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1341692003556 ligand binding site [chemical binding]; other site 1341692003557 NAD binding site [chemical binding]; other site 1341692003558 dimerization interface [polypeptide binding]; other site 1341692003559 catalytic site [active] 1341692003560 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1341692003561 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 1341692003562 putative substrate translocation pore; other site 1341692003563 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 1341692003564 non-specific DNA binding site [nucleotide binding]; other site 1341692003565 salt bridge; other site 1341692003566 sequence-specific DNA binding site [nucleotide binding]; other site 1341692003567 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 1341692003568 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1341692003569 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 1341692003570 putative substrate translocation pore; other site 1341692003571 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1341692003572 active sites [active] 1341692003573 tetramer interface [polypeptide binding]; other site 1341692003574 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1341692003575 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1341692003576 Na binding site [ion binding]; other site 1341692003577 PAS domain; Region: PAS_9; pfam13426 1341692003578 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1341692003579 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 1341692003580 Walker A motif; other site 1341692003581 ATP binding site [chemical binding]; other site 1341692003582 Walker B motif; other site 1341692003583 arginine finger; other site 1341692003584 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1341692003585 aspartate kinase; Reviewed; Region: PRK09034 1341692003586 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1341692003587 nucleotide binding site [chemical binding]; other site 1341692003588 substrate binding site [chemical binding]; other site 1341692003589 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1341692003590 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1341692003591 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1341692003592 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 1341692003593 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1341692003594 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1341692003595 Predicted transcriptional regulators [Transcription]; Region: COG1695 1341692003596 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1341692003597 Clp protease; Region: CLP_protease; pfam00574 1341692003598 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1341692003599 oligomer interface [polypeptide binding]; other site 1341692003600 active site residues [active] 1341692003601 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692003602 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1341692003603 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692003604 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692003605 HAMP domain; Region: HAMP; pfam00672 1341692003606 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 1341692003607 dimer interface [polypeptide binding]; other site 1341692003608 phosphorylation site [posttranslational modification] 1341692003609 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 1341692003610 ATP binding site [chemical binding]; other site 1341692003611 Mg2+ binding site [ion binding]; other site 1341692003612 G-X-G motif; other site 1341692003613 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692003614 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 1341692003615 active site 1341692003616 phosphorylation site [posttranslational modification] 1341692003617 intermolecular recognition site; other site 1341692003618 dimerization interface [polypeptide binding]; other site 1341692003619 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 1341692003620 DNA binding site [nucleotide binding] 1341692003621 Man1-Src1p-C-terminal domain; Region: MSC; pfam09402 1341692003622 Uncharacterized conserved protein [Function unknown]; Region: COG2454 1341692003623 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1341692003624 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1341692003625 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1341692003626 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1341692003627 Walker A/P-loop; other site 1341692003628 ATP binding site [chemical binding]; other site 1341692003629 Q-loop/lid; other site 1341692003630 ABC transporter signature motif; other site 1341692003631 Walker B; other site 1341692003632 D-loop; other site 1341692003633 H-loop/switch region; other site 1341692003634 spore photoproduct lyase; Region: photo_TT_lyase; TIGR04070 1341692003635 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1341692003636 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 1341692003637 Ligand Binding Site [chemical binding]; other site 1341692003638 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1341692003639 dimer interface [polypeptide binding]; other site 1341692003640 substrate binding site [chemical binding]; other site 1341692003641 ATP binding site [chemical binding]; other site 1341692003642 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 1341692003643 substrate binding site [chemical binding]; other site 1341692003644 multimerization interface [polypeptide binding]; other site 1341692003645 ATP binding site [chemical binding]; other site 1341692003646 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 1341692003647 thiamine phosphate binding site [chemical binding]; other site 1341692003648 active site 1341692003649 pyrophosphate binding site [ion binding]; other site 1341692003650 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 1341692003651 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 1341692003652 motif II; other site 1341692003653 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 1341692003654 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_17; cd04676 1341692003655 nudix motif; other site 1341692003656 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1341692003657 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1341692003658 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1341692003659 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1341692003660 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692003661 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 1341692003662 putative DNA binding site [nucleotide binding]; other site 1341692003663 putative Zn2+ binding site [ion binding]; other site 1341692003664 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692003665 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692003666 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 1341692003667 dimerization interface [polypeptide binding]; other site 1341692003668 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1341692003669 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 1341692003670 substrate binding pocket [chemical binding]; other site 1341692003671 membrane-bound complex binding site; other site 1341692003672 hinge residues; other site 1341692003673 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1341692003674 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 1341692003675 dimer interface [polypeptide binding]; other site 1341692003676 conserved gate region; other site 1341692003677 putative PBP binding loops; other site 1341692003678 ABC-ATPase subunit interface; other site 1341692003679 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1341692003680 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692003681 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692003682 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692003683 dimer interface [polypeptide binding]; other site 1341692003684 putative CheW interface [polypeptide binding]; other site 1341692003685 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1341692003686 Part of AAA domain; Region: AAA_19; pfam13245 1341692003687 Family description; Region: UvrD_C_2; pfam13538 1341692003688 GAF domain; Region: GAF_3; pfam13492 1341692003689 GAF domain; Region: GAF_2; pfam13185 1341692003690 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692003691 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692003692 metal binding site [ion binding]; metal-binding site 1341692003693 active site 1341692003694 I-site; other site 1341692003695 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 1341692003696 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1341692003697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692003698 catalytic residue [active] 1341692003699 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1341692003700 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1341692003701 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1341692003702 catalytic residue [active] 1341692003703 cobalt transport protein CbiM; Provisional; Region: PRK07331 1341692003704 cobalt transport protein CbiM; Provisional; Region: PRK11909 1341692003705 PDGLE domain; Region: PDGLE; pfam13190 1341692003706 lipoyl synthase; Provisional; Region: PRK05481 1341692003707 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 1341692003708 FeS/SAM binding site; other site 1341692003709 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1341692003710 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1341692003711 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1341692003712 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1341692003713 DNA-binding site [nucleotide binding]; DNA binding site 1341692003714 RNA-binding motif; other site 1341692003715 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1341692003716 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1341692003717 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1341692003718 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1341692003719 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1341692003720 putative L-serine binding site [chemical binding]; other site 1341692003721 aspartate aminotransferase; Provisional; Region: PRK09275 1341692003722 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 1341692003723 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1341692003724 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 1341692003725 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1341692003726 catalytic residue [active] 1341692003727 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692003728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692003729 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 1341692003730 dimerization interface [polypeptide binding]; other site 1341692003731 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1341692003732 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 1341692003733 Predicted membrane protein [Function unknown]; Region: COG1511 1341692003734 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1341692003735 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1341692003736 sugar phosphate phosphatase; Provisional; Region: PRK10513 1341692003737 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 1341692003738 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 1341692003739 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 1341692003740 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1341692003741 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 1341692003742 FeS/SAM binding site; other site 1341692003743 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1341692003744 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1341692003745 dinuclear metal binding motif [ion binding]; other site 1341692003746 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 1341692003747 CotJB protein; Region: CotJB; pfam12652 1341692003748 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1341692003749 dimanganese center [ion binding]; other site 1341692003750 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1341692003751 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1341692003752 putative ligand binding site [chemical binding]; other site 1341692003753 putative NAD binding site [chemical binding]; other site 1341692003754 catalytic site [active] 1341692003755 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 1341692003756 M20 Peptidase Aminoacylase 1-like protein 2, amidohydrolase family; Region: M20_Acy1L2_like_2; cd09849 1341692003757 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1341692003758 metal binding site [ion binding]; metal-binding site 1341692003759 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1341692003760 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 1341692003761 phosphate binding site [ion binding]; other site 1341692003762 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1341692003763 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1341692003764 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1341692003765 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692003766 dimer interface [polypeptide binding]; other site 1341692003767 putative CheW interface [polypeptide binding]; other site 1341692003768 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1341692003769 VanW like protein; Region: VanW; pfam04294 1341692003770 putative hydrolase; Validated; Region: PRK09248 1341692003771 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 1341692003772 active site 1341692003773 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 1341692003774 active site 1341692003775 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 1341692003776 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1341692003777 UDP-galactopyranose mutase; Region: GLF; pfam03275 1341692003778 Coat F domain; Region: Coat_F; pfam07875 1341692003779 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1341692003780 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1341692003781 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 1341692003782 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1341692003783 [2Fe-2S] cluster binding site [ion binding]; other site 1341692003784 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1341692003785 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1341692003786 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1341692003787 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 1341692003788 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1341692003789 catalytic residue [active] 1341692003790 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1341692003791 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 1341692003792 CoA-binding site [chemical binding]; other site 1341692003793 ATP-binding [chemical binding]; other site 1341692003794 DNA polymerase I; Provisional; Region: PRK05755 1341692003795 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1341692003796 active site 1341692003797 metal binding site 1 [ion binding]; metal-binding site 1341692003798 putative 5' ssDNA interaction site; other site 1341692003799 metal binding site 3; metal-binding site 1341692003800 metal binding site 2 [ion binding]; metal-binding site 1341692003801 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1341692003802 putative DNA binding site [nucleotide binding]; other site 1341692003803 putative metal binding site [ion binding]; other site 1341692003804 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 1341692003805 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1341692003806 active site 1341692003807 DNA binding site [nucleotide binding] 1341692003808 catalytic site [active] 1341692003809 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1341692003810 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1341692003811 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1341692003812 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 1341692003813 dimer interface [polypeptide binding]; other site 1341692003814 anticodon binding site; other site 1341692003815 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 1341692003816 homodimer interface [polypeptide binding]; other site 1341692003817 motif 1; other site 1341692003818 active site 1341692003819 motif 2; other site 1341692003820 GAD domain; Region: GAD; pfam02938 1341692003821 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 1341692003822 motif 3; other site 1341692003823 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1341692003824 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 1341692003825 dimer interface [polypeptide binding]; other site 1341692003826 motif 1; other site 1341692003827 active site 1341692003828 motif 2; other site 1341692003829 motif 3; other site 1341692003830 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 1341692003831 anticodon binding site; other site 1341692003832 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 1341692003833 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 1341692003834 FeS/SAM binding site; other site 1341692003835 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1341692003836 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 1341692003837 putative active site [active] 1341692003838 dimerization interface [polypeptide binding]; other site 1341692003839 putative tRNAtyr binding site [nucleotide binding]; other site 1341692003840 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1341692003841 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692003842 Zn2+ binding site [ion binding]; other site 1341692003843 Mg2+ binding site [ion binding]; other site 1341692003844 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1341692003845 synthetase active site [active] 1341692003846 NTP binding site [chemical binding]; other site 1341692003847 metal binding site [ion binding]; metal-binding site 1341692003848 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 1341692003849 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1341692003850 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1341692003851 active site 1341692003852 DHH family; Region: DHH; pfam01368 1341692003853 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1341692003854 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1341692003855 Protein export membrane protein; Region: SecD_SecF; cl14618 1341692003856 protein-export membrane protein SecD; Region: secD; TIGR01129 1341692003857 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1341692003858 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 1341692003859 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 1341692003860 FeS/SAM binding site; other site 1341692003861 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1341692003862 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 1341692003863 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 1341692003864 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1341692003865 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1341692003866 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1341692003867 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1341692003868 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1341692003869 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1341692003870 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 1341692003871 Walker A motif; other site 1341692003872 ATP binding site [chemical binding]; other site 1341692003873 Walker B motif; other site 1341692003874 arginine finger; other site 1341692003875 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1341692003876 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1341692003877 RuvA N terminal domain; Region: RuvA_N; pfam01330 1341692003878 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1341692003879 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1341692003880 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1341692003881 YceG-like family; Region: YceG; pfam02618 1341692003882 dimerization interface [polypeptide binding]; other site 1341692003883 hypothetical protein; Validated; Region: PRK00110 1341692003884 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1341692003885 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1341692003886 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1341692003887 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1341692003888 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692003889 DNA-binding site [nucleotide binding]; DNA binding site 1341692003890 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 1341692003891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692003892 homodimer interface [polypeptide binding]; other site 1341692003893 catalytic residue [active] 1341692003894 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1341692003895 active site 1341692003896 NTP binding site [chemical binding]; other site 1341692003897 metal binding triad [ion binding]; metal-binding site 1341692003898 antibiotic binding site [chemical binding]; other site 1341692003899 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1341692003900 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1341692003901 HflX GTPase family; Region: HflX; cd01878 1341692003902 G1 box; other site 1341692003903 GTP/Mg2+ binding site [chemical binding]; other site 1341692003904 Switch I region; other site 1341692003905 G2 box; other site 1341692003906 G3 box; other site 1341692003907 Switch II region; other site 1341692003908 G4 box; other site 1341692003909 G5 box; other site 1341692003910 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1341692003911 active site 1341692003912 sporulation protein YunB; Region: spo_yunB; TIGR02832 1341692003913 Transglycosylase; Region: Transgly; pfam00912 1341692003914 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1341692003915 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1341692003916 sporulation sigma factor SigF; Validated; Region: PRK05572 1341692003917 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692003918 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1341692003919 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 1341692003920 DNA binding residues [nucleotide binding] 1341692003921 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 1341692003922 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 1341692003923 ATP binding site [chemical binding]; other site 1341692003924 Mg2+ binding site [ion binding]; other site 1341692003925 G-X-G motif; other site 1341692003926 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 1341692003927 anti sigma factor interaction site; other site 1341692003928 regulatory phosphorylation site [posttranslational modification]; other site 1341692003929 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1341692003930 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 1341692003931 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 1341692003932 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 1341692003933 NodB motif; other site 1341692003934 active site 1341692003935 catalytic site [active] 1341692003936 Cd binding site [ion binding]; other site 1341692003937 Rrf2 family protein; Region: rrf2_super; TIGR00738 1341692003938 Transcriptional regulator; Region: Rrf2; pfam02082 1341692003939 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1341692003940 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 1341692003941 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1341692003942 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1341692003943 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1341692003944 integral membrane protein MviN; Region: mviN; TIGR01695 1341692003945 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1341692003946 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692003947 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 1341692003948 O-Antigen ligase; Region: Wzy_C; cl04850 1341692003949 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1341692003950 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 1341692003951 active site 1341692003952 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 1341692003953 homodimer interface [polypeptide binding]; other site 1341692003954 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 1341692003955 putative trimer interface [polypeptide binding]; other site 1341692003956 putative CoA binding site [chemical binding]; other site 1341692003957 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 1341692003958 putative trimer interface [polypeptide binding]; other site 1341692003959 putative active site [active] 1341692003960 putative substrate binding site [chemical binding]; other site 1341692003961 putative CoA binding site [chemical binding]; other site 1341692003962 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1341692003963 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1341692003964 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1341692003965 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1341692003966 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1341692003967 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1341692003968 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1341692003969 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1341692003970 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1341692003971 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1341692003972 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1341692003973 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1341692003974 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1341692003975 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 1341692003976 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1341692003977 Ligand binding site; other site 1341692003978 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692003979 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 1341692003980 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 1341692003981 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692003982 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1341692003983 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 1341692003984 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1341692003985 NAD(P) binding site [chemical binding]; other site 1341692003986 homodimer interface [polypeptide binding]; other site 1341692003987 substrate binding site [chemical binding]; other site 1341692003988 active site 1341692003989 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1341692003990 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1341692003991 active site 1341692003992 tetramer interface; other site 1341692003993 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1341692003994 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 1341692003995 binding surface 1341692003996 TPR motif; other site 1341692003997 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1341692003998 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1341692003999 active site 1341692004000 substrate binding site [chemical binding]; other site 1341692004001 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1341692004002 metal binding site [ion binding]; metal-binding site 1341692004003 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1341692004004 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1341692004005 homodimer interface [polypeptide binding]; other site 1341692004006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692004007 catalytic residue [active] 1341692004008 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1341692004009 RNA polymerase factor sigma-70; Validated; Region: PRK06811 1341692004010 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692004011 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1341692004012 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 1341692004013 Predicted transcriptional regulators [Transcription]; Region: COG1695 1341692004014 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1341692004015 topology modulation protein; Reviewed; Region: PRK08118 1341692004016 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK13951 1341692004017 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 1341692004018 RNA binding surface [nucleotide binding]; other site 1341692004019 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1341692004020 active site 1341692004021 HIGH motif; other site 1341692004022 dimer interface [polypeptide binding]; other site 1341692004023 KMSKS motif; other site 1341692004024 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1341692004025 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1341692004026 Predicted transcriptional regulators [Transcription]; Region: COG1695 1341692004027 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1341692004028 manganese transport protein MntH; Reviewed; Region: PRK00701 1341692004029 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1341692004030 manganese transport transcriptional regulator; Provisional; Region: PRK03902 1341692004031 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1341692004032 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1341692004033 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1341692004034 active site 1341692004035 substrate binding site [chemical binding]; other site 1341692004036 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1341692004037 FMN binding site [chemical binding]; other site 1341692004038 putative catalytic residues [active] 1341692004039 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1341692004040 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1341692004041 MutS domain III; Region: MutS_III; pfam05192 1341692004042 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1341692004043 Walker A/P-loop; other site 1341692004044 ATP binding site [chemical binding]; other site 1341692004045 Q-loop/lid; other site 1341692004046 ABC transporter signature motif; other site 1341692004047 Walker B; other site 1341692004048 D-loop; other site 1341692004049 H-loop/switch region; other site 1341692004050 Smr domain; Region: Smr; pfam01713 1341692004051 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1341692004052 Peptidase family U32; Region: Peptidase_U32; pfam01136 1341692004053 Collagenase; Region: DUF3656; pfam12392 1341692004054 Peptidase family U32; Region: Peptidase_U32; pfam01136 1341692004055 Cell division protein ZapA; Region: ZapA; pfam05164 1341692004056 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1341692004057 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 1341692004058 putative tRNA-binding site [nucleotide binding]; other site 1341692004059 B3/4 domain; Region: B3_4; pfam03483 1341692004060 tRNA synthetase B5 domain; Region: B5; smart00874 1341692004061 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 1341692004062 dimer interface [polypeptide binding]; other site 1341692004063 motif 1; other site 1341692004064 motif 3; other site 1341692004065 motif 2; other site 1341692004066 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1341692004067 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1341692004068 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1341692004069 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 1341692004070 dimer interface [polypeptide binding]; other site 1341692004071 motif 1; other site 1341692004072 active site 1341692004073 motif 2; other site 1341692004074 motif 3; other site 1341692004075 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1341692004076 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1341692004077 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1341692004078 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1341692004079 23S rRNA binding site [nucleotide binding]; other site 1341692004080 L21 binding site [polypeptide binding]; other site 1341692004081 L13 binding site [polypeptide binding]; other site 1341692004082 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1341692004083 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1341692004084 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1341692004085 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1341692004086 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1341692004087 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 1341692004088 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1341692004089 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 1341692004090 active site 1341692004091 dimer interface [polypeptide binding]; other site 1341692004092 motif 1; other site 1341692004093 motif 2; other site 1341692004094 motif 3; other site 1341692004095 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 1341692004096 anticodon binding site; other site 1341692004097 YtxC-like family; Region: YtxC; pfam08812 1341692004098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1341692004099 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1341692004100 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1341692004101 aminotransferase A; Validated; Region: PRK07683 1341692004102 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 1341692004103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692004104 homodimer interface [polypeptide binding]; other site 1341692004105 catalytic residue [active] 1341692004106 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1341692004107 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1341692004108 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1341692004109 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1341692004110 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1341692004111 dimer interface [polypeptide binding]; other site 1341692004112 active site 1341692004113 catalytic residue [active] 1341692004114 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1341692004115 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1341692004116 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1341692004117 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1341692004118 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 1341692004119 S-adenosylmethionine binding site [chemical binding]; other site 1341692004120 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1341692004121 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 1341692004122 dimerization interface [polypeptide binding]; other site 1341692004123 domain crossover interface; other site 1341692004124 redox-dependent activation switch; other site 1341692004125 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 1341692004126 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 1341692004127 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 1341692004128 trimer interface [polypeptide binding]; other site 1341692004129 active site 1341692004130 substrate binding site [chemical binding]; other site 1341692004131 CoA binding site [chemical binding]; other site 1341692004132 single-stranded DNA-binding protein; Provisional; Region: PRK05813 1341692004133 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 1341692004134 dimer interface [polypeptide binding]; other site 1341692004135 ssDNA binding site [nucleotide binding]; other site 1341692004136 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1341692004137 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1341692004138 NodB motif; other site 1341692004139 active site 1341692004140 catalytic site [active] 1341692004141 metal binding site [ion binding]; metal-binding site 1341692004142 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 1341692004143 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1341692004144 TSCPD domain; Region: TSCPD; cl14834 1341692004145 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1341692004146 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1341692004147 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1341692004148 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1341692004149 active site 1341692004150 HIGH motif; other site 1341692004151 nucleotide binding site [chemical binding]; other site 1341692004152 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1341692004153 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1341692004154 active site 1341692004155 KMSKS motif; other site 1341692004156 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1341692004157 tRNA binding surface [nucleotide binding]; other site 1341692004158 anticodon binding site; other site 1341692004159 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1341692004160 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1341692004161 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 1341692004162 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1341692004163 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1341692004164 stationary phase survival protein SurE; Provisional; Region: PRK13933 1341692004165 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692004166 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692004167 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 1341692004168 dimerization interface [polypeptide binding]; other site 1341692004169 C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor; Region: CtBP_dh; cd05299 1341692004170 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 1341692004171 ligand binding site [chemical binding]; other site 1341692004172 NAD binding site [chemical binding]; other site 1341692004173 catalytic site [active] 1341692004174 hypothetical protein; Validated; Region: PRK06201 1341692004175 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1341692004176 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 1341692004177 D-galactonate transporter; Region: 2A0114; TIGR00893 1341692004178 putative substrate translocation pore; other site 1341692004179 putative metallo-dependent hydrolase; Provisional; Region: PRK12394 1341692004180 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 1341692004181 active site 1341692004182 Predicted transcriptional regulators [Transcription]; Region: COG1695 1341692004183 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1341692004184 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 1341692004185 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1341692004186 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1341692004187 TM-ABC transporter signature motif; other site 1341692004188 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1341692004189 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1341692004190 TM-ABC transporter signature motif; other site 1341692004191 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1341692004192 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1341692004193 Walker A/P-loop; other site 1341692004194 ATP binding site [chemical binding]; other site 1341692004195 Q-loop/lid; other site 1341692004196 ABC transporter signature motif; other site 1341692004197 Walker B; other site 1341692004198 D-loop; other site 1341692004199 H-loop/switch region; other site 1341692004200 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1341692004201 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 1341692004202 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1341692004203 putative ligand binding site [chemical binding]; other site 1341692004204 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1341692004205 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1341692004206 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1341692004207 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1341692004208 WHG domain; Region: WHG; pfam13305 1341692004209 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 1341692004210 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1341692004211 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1341692004212 NAD(P) binding site [chemical binding]; other site 1341692004213 homotetramer interface [polypeptide binding]; other site 1341692004214 homodimer interface [polypeptide binding]; other site 1341692004215 active site 1341692004216 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 1341692004217 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1341692004218 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 1341692004219 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 1341692004220 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1341692004221 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 1341692004222 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1341692004223 CRISPR-associated protein Cas5, subtype I-B/HMARI; Region: cas_Cas5h; TIGR02592 1341692004224 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 1341692004225 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 1341692004226 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 1341692004227 CRISPR-associated endoribonuclease Cas6; Region: cas_cas6; TIGR01877 1341692004228 CAAX protease self-immunity; Region: Abi; pfam02517 1341692004229 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1341692004230 hydrophobic ligand binding site; other site 1341692004231 AAA domain; Region: AAA_18; pfam13238 1341692004232 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 1341692004233 putative FMN binding site [chemical binding]; other site 1341692004234 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1341692004235 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1341692004236 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692004237 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692004238 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 1341692004239 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1341692004240 putative substrate translocation pore; other site 1341692004241 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 1341692004242 putative substrate translocation pore; other site 1341692004243 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1341692004244 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692004245 Coenzyme A binding pocket [chemical binding]; other site 1341692004246 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 1341692004247 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 1341692004248 substrate binding site [chemical binding]; other site 1341692004249 multimerization interface [polypeptide binding]; other site 1341692004250 ATP binding site [chemical binding]; other site 1341692004251 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1341692004252 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1341692004253 DNA binding residues [nucleotide binding] 1341692004254 dimer interface [polypeptide binding]; other site 1341692004255 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 1341692004256 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1341692004257 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692004258 Coenzyme A binding pocket [chemical binding]; other site 1341692004259 Putative esterase; Region: Esterase; pfam00756 1341692004260 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1341692004261 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692004262 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1341692004263 Coenzyme A binding pocket [chemical binding]; other site 1341692004264 Predicted transcriptional regulators [Transcription]; Region: COG1695 1341692004265 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1341692004266 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 1341692004267 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 1341692004268 active site 1341692004269 putative substrate binding region [chemical binding]; other site 1341692004270 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 1341692004271 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1341692004272 conserved cys residue [active] 1341692004273 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692004274 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 1341692004275 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692004276 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692004277 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1341692004278 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 1341692004279 active site 1341692004280 phosphorylation site [posttranslational modification] 1341692004281 intermolecular recognition site; other site 1341692004282 LytTr DNA-binding domain; Region: LytTR; pfam04397 1341692004283 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1341692004284 ATP binding site [chemical binding]; other site 1341692004285 Mg2+ binding site [ion binding]; other site 1341692004286 G-X-G motif; other site 1341692004287 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1341692004288 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692004289 Walker A/P-loop; other site 1341692004290 ATP binding site [chemical binding]; other site 1341692004291 Q-loop/lid; other site 1341692004292 ABC transporter signature motif; other site 1341692004293 Walker B; other site 1341692004294 D-loop; other site 1341692004295 H-loop/switch region; other site 1341692004296 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1341692004297 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1341692004298 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 1341692004299 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1341692004300 Beta-lactamase; Region: Beta-lactamase; pfam00144 1341692004301 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1341692004302 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 1341692004303 FMN binding site [chemical binding]; other site 1341692004304 dimer interface [polypeptide binding]; other site 1341692004305 Short C-terminal domain; Region: SHOCT; pfam09851 1341692004306 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 1341692004307 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 1341692004308 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1341692004309 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1341692004310 Walker A/P-loop; other site 1341692004311 ATP binding site [chemical binding]; other site 1341692004312 Q-loop/lid; other site 1341692004313 ABC transporter signature motif; other site 1341692004314 Walker B; other site 1341692004315 D-loop; other site 1341692004316 H-loop/switch region; other site 1341692004317 Predicted transcriptional regulators [Transcription]; Region: COG1725 1341692004318 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692004319 DNA-binding site [nucleotide binding]; DNA binding site 1341692004320 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1341692004321 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 1341692004322 catalytic residues [active] 1341692004323 catalytic nucleophile [active] 1341692004324 Recombinase; Region: Recombinase; pfam07508 1341692004325 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1341692004326 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1341692004327 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1341692004328 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 1341692004329 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1341692004330 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 1341692004331 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1341692004332 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 1341692004333 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1341692004334 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1341692004335 Walker A/P-loop; other site 1341692004336 ATP binding site [chemical binding]; other site 1341692004337 Q-loop/lid; other site 1341692004338 ABC transporter signature motif; other site 1341692004339 Walker B; other site 1341692004340 D-loop; other site 1341692004341 H-loop/switch region; other site 1341692004342 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1341692004343 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 1341692004344 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1341692004345 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 1341692004346 binding surface 1341692004347 TPR motif; other site 1341692004348 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1341692004349 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1341692004350 recombination regulator RecX; Provisional; Region: recX; PRK14134 1341692004351 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1341692004352 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1341692004353 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1341692004354 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1341692004355 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 1341692004356 ATP binding site [chemical binding]; other site 1341692004357 Mg++ binding site [ion binding]; other site 1341692004358 motif III; other site 1341692004359 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 1341692004360 nucleotide binding region [chemical binding]; other site 1341692004361 ATP-binding site [chemical binding]; other site 1341692004362 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 1341692004363 RNA binding site [nucleotide binding]; other site 1341692004364 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1341692004365 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 1341692004366 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1341692004367 transcription elongation factor GreA; Region: greA; TIGR01462 1341692004368 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1341692004369 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1341692004370 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1341692004371 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1341692004372 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 1341692004373 catalytic residue [active] 1341692004374 putative FPP diphosphate binding site; other site 1341692004375 putative FPP binding hydrophobic cleft; other site 1341692004376 dimer interface [polypeptide binding]; other site 1341692004377 putative IPP diphosphate binding site; other site 1341692004378 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1341692004379 Cation efflux family; Region: Cation_efflux; pfam01545 1341692004380 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 1341692004381 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 1341692004382 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1341692004383 ApbE family; Region: ApbE; pfam02424 1341692004384 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 1341692004385 homotrimer interface [polypeptide binding]; other site 1341692004386 Walker A motif; other site 1341692004387 GTP binding site [chemical binding]; other site 1341692004388 Walker B motif; other site 1341692004389 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1341692004390 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 1341692004391 catalytic core [active] 1341692004392 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1341692004393 metal binding site 2 [ion binding]; metal-binding site 1341692004394 putative DNA binding helix; other site 1341692004395 metal binding site 1 [ion binding]; metal-binding site 1341692004396 dimer interface [polypeptide binding]; other site 1341692004397 structural Zn2+ binding site [ion binding]; other site 1341692004398 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1341692004399 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1341692004400 Family description; Region: VCBS; pfam13517 1341692004401 Predicted transcriptional regulator [Transcription]; Region: COG2378 1341692004402 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 1341692004403 putative DNA binding site [nucleotide binding]; other site 1341692004404 putative Zn2+ binding site [ion binding]; other site 1341692004405 WYL domain; Region: WYL; pfam13280 1341692004406 CAAX protease self-immunity; Region: Abi; pfam02517 1341692004407 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1341692004408 G1 box; other site 1341692004409 GTP/Mg2+ binding site [chemical binding]; other site 1341692004410 Switch I region; other site 1341692004411 G2 box; other site 1341692004412 G3 box; other site 1341692004413 Switch II region; other site 1341692004414 G4 box; other site 1341692004415 G5 box; other site 1341692004416 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1341692004417 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1341692004418 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 1341692004419 Walker A motif; other site 1341692004420 ATP binding site [chemical binding]; other site 1341692004421 Walker B motif; other site 1341692004422 arginine finger; other site 1341692004423 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1341692004424 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1341692004425 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1341692004426 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 1341692004427 Walker A motif; other site 1341692004428 ATP binding site [chemical binding]; other site 1341692004429 Walker B motif; other site 1341692004430 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1341692004431 Clp protease; Region: CLP_protease; pfam00574 1341692004432 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1341692004433 oligomer interface [polypeptide binding]; other site 1341692004434 active site residues [active] 1341692004435 trigger factor; Provisional; Region: tig; PRK01490 1341692004436 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1341692004437 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1341692004438 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1341692004439 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 1341692004440 DNA interaction; other site 1341692004441 Metal-binding active site; metal-binding site 1341692004442 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1341692004443 active site 1341692004444 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 1341692004445 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1341692004446 heterodimer interface [polypeptide binding]; other site 1341692004447 active site 1341692004448 FMN binding site [chemical binding]; other site 1341692004449 homodimer interface [polypeptide binding]; other site 1341692004450 substrate binding site [chemical binding]; other site 1341692004451 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1341692004452 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 1341692004453 FAD binding pocket [chemical binding]; other site 1341692004454 FAD binding motif [chemical binding]; other site 1341692004455 phosphate binding motif [ion binding]; other site 1341692004456 beta-alpha-beta structure motif; other site 1341692004457 NAD binding pocket [chemical binding]; other site 1341692004458 Iron coordination center [ion binding]; other site 1341692004459 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 1341692004460 active site 1341692004461 dimer interface [polypeptide binding]; other site 1341692004462 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 1341692004463 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 1341692004464 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 1341692004465 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1341692004466 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1341692004467 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1341692004468 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1341692004469 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 1341692004470 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 1341692004471 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1341692004472 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1341692004473 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 1341692004474 putative substrate translocation pore; other site 1341692004475 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 1341692004476 active site 1341692004477 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1341692004478 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1341692004479 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1341692004480 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1341692004481 Probable zinc-binding domain; Region: zf-trcl; pfam13451 1341692004482 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 1341692004483 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; cl00290 1341692004484 manganese transport protein MntH; Reviewed; Region: PRK00701 1341692004485 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1341692004486 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1341692004487 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1341692004488 WHG domain; Region: WHG; pfam13305 1341692004489 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1341692004490 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 1341692004491 homodimer interface [polypeptide binding]; other site 1341692004492 active site 1341692004493 FMN binding site [chemical binding]; other site 1341692004494 substrate binding site [chemical binding]; other site 1341692004495 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1341692004496 phenylhydantoinase; Validated; Region: PRK08323 1341692004497 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1341692004498 tetramer interface [polypeptide binding]; other site 1341692004499 active site 1341692004500 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 1341692004501 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1341692004502 Na binding site [ion binding]; other site 1341692004503 putative substrate binding site [chemical binding]; other site 1341692004504 allantoate amidohydrolase; Reviewed; Region: PRK09290 1341692004505 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1341692004506 active site 1341692004507 metal binding site [ion binding]; metal-binding site 1341692004508 dimer interface [polypeptide binding]; other site 1341692004509 hypothetical protein; Provisional; Region: PRK06062 1341692004510 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 1341692004511 inhibitor-cofactor binding pocket; inhibition site 1341692004512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692004513 catalytic residue [active] 1341692004514 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1341692004515 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1341692004516 active site 1341692004517 NAD binding site [chemical binding]; other site 1341692004518 metal binding site [ion binding]; metal-binding site 1341692004519 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1341692004520 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1341692004521 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1341692004522 Spore germination protein; Region: Spore_permease; cl17796 1341692004523 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1341692004524 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 1341692004525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692004526 catalytic residue [active] 1341692004527 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1341692004528 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1341692004529 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1341692004530 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1341692004531 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1341692004532 glutamine binding [chemical binding]; other site 1341692004533 catalytic triad [active] 1341692004534 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1341692004535 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1341692004536 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1341692004537 DNA binding residues [nucleotide binding] 1341692004538 putative dimer interface [polypeptide binding]; other site 1341692004539 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692004540 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692004541 metal binding site [ion binding]; metal-binding site 1341692004542 active site 1341692004543 I-site; other site 1341692004544 YvrJ protein family; Region: YvrJ; pfam12841 1341692004545 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 1341692004546 Hemerythrin; Region: Hemerythrin; cd12107 1341692004547 Fe binding site [ion binding]; other site 1341692004548 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1341692004549 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 1341692004550 putative substrate translocation pore; other site 1341692004551 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 1341692004552 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1341692004553 putative active site [active] 1341692004554 putative metal binding site [ion binding]; other site 1341692004555 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 1341692004556 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 1341692004557 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1341692004558 active site 1341692004559 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 1341692004560 binding surface 1341692004561 TPR motif; other site 1341692004562 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 1341692004563 binding surface 1341692004564 TPR repeat; Region: TPR_11; pfam13414 1341692004565 TPR motif; other site 1341692004566 TPR repeat; Region: TPR_11; pfam13414 1341692004567 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 1341692004568 binding surface 1341692004569 TPR repeat; Region: TPR_11; pfam13414 1341692004570 TPR motif; other site 1341692004571 Chromate transporter; Region: Chromate_transp; pfam02417 1341692004572 Chromate transporter; Region: Chromate_transp; pfam02417 1341692004573 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1341692004574 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1341692004575 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 1341692004576 dimerization interface [polypeptide binding]; other site 1341692004577 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692004578 dimer interface [polypeptide binding]; other site 1341692004579 putative CheW interface [polypeptide binding]; other site 1341692004580 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 1341692004581 putative FMN binding site [chemical binding]; other site 1341692004582 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 1341692004583 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 1341692004584 active site 1341692004585 catalytic site [active] 1341692004586 substrate binding site [chemical binding]; other site 1341692004587 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 1341692004588 Dimer interface [polypeptide binding]; other site 1341692004589 BRCT sequence motif; other site 1341692004590 radical SAM/SPASM domain protein, ACGX system; Region: rSAM_ACGX; TIGR04340 1341692004591 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 1341692004592 FeS/SAM binding site; other site 1341692004593 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1341692004594 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 1341692004595 S-adenosylmethionine binding site [chemical binding]; other site 1341692004596 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1341692004597 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1341692004598 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1341692004599 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 1341692004600 putative active site [active] 1341692004601 heme pocket [chemical binding]; other site 1341692004602 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 1341692004603 Walker A motif; other site 1341692004604 ATP binding site [chemical binding]; other site 1341692004605 Walker B motif; other site 1341692004606 arginine finger; other site 1341692004607 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1341692004608 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1341692004609 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692004610 AAA domain; Region: AAA_21; pfam13304 1341692004611 Walker A/P-loop; other site 1341692004612 ATP binding site [chemical binding]; other site 1341692004613 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692004614 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692004615 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692004616 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1341692004617 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1341692004618 active site 1341692004619 metal binding site [ion binding]; metal-binding site 1341692004620 homotetramer interface [polypeptide binding]; other site 1341692004621 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 1341692004622 active site 1341692004623 dimerization interface [polypeptide binding]; other site 1341692004624 ribonuclease PH; Reviewed; Region: rph; PRK00173 1341692004625 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1341692004626 hexamer interface [polypeptide binding]; other site 1341692004627 active site 1341692004628 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 1341692004629 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 1341692004630 dimerization interface [polypeptide binding]; other site 1341692004631 putative ATP binding site [chemical binding]; other site 1341692004632 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1341692004633 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1341692004634 peptide binding site [polypeptide binding]; other site 1341692004635 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1341692004636 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1341692004637 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1341692004638 GatB domain; Region: GatB_Yqey; smart00845 1341692004639 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1341692004640 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1341692004641 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1341692004642 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1341692004643 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1341692004644 catalytic triad [active] 1341692004645 PAS domain; Region: PAS; smart00091 1341692004646 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 1341692004647 Walker A motif; other site 1341692004648 ATP binding site [chemical binding]; other site 1341692004649 Walker B motif; other site 1341692004650 arginine finger; other site 1341692004651 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1341692004652 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 1341692004653 nucleotide binding pocket [chemical binding]; other site 1341692004654 K-X-D-G motif; other site 1341692004655 catalytic site [active] 1341692004656 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1341692004657 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1341692004658 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 1341692004659 Dimer interface [polypeptide binding]; other site 1341692004660 BRCT sequence motif; other site 1341692004661 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1341692004662 Part of AAA domain; Region: AAA_19; pfam13245 1341692004663 Family description; Region: UvrD_C_2; pfam13538 1341692004664 Trp repressor protein; Region: Trp_repressor; cl17266 1341692004665 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1341692004666 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 1341692004667 RNA binding surface [nucleotide binding]; other site 1341692004668 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1341692004669 active site 1341692004670 uracil binding [chemical binding]; other site 1341692004671 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1341692004672 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 1341692004673 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1341692004674 catalytic residue [active] 1341692004675 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 1341692004676 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1341692004677 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1341692004678 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1341692004679 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1341692004680 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1341692004681 hypothetical protein; Validated; Region: PRK00124 1341692004682 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1341692004683 Predicted transcriptional regulators [Transcription]; Region: COG1733 1341692004684 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 1341692004685 dimerization interface [polypeptide binding]; other site 1341692004686 putative DNA binding site [nucleotide binding]; other site 1341692004687 putative Zn2+ binding site [ion binding]; other site 1341692004688 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1341692004689 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1341692004690 active site 1341692004691 dimer interface [polypeptide binding]; other site 1341692004692 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1341692004693 dimer interface [polypeptide binding]; other site 1341692004694 active site 1341692004695 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1341692004696 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692004697 dimer interface [polypeptide binding]; other site 1341692004698 putative CheW interface [polypeptide binding]; other site 1341692004699 GMP synthase; Reviewed; Region: guaA; PRK00074 1341692004700 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1341692004701 AMP/PPi binding site [chemical binding]; other site 1341692004702 candidate oxyanion hole; other site 1341692004703 catalytic triad [active] 1341692004704 potential glutamine specificity residues [chemical binding]; other site 1341692004705 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 1341692004706 ATP Binding subdomain [chemical binding]; other site 1341692004707 Ligand Binding sites [chemical binding]; other site 1341692004708 Dimerization subdomain; other site 1341692004709 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1341692004710 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 1341692004711 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 1341692004712 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 1341692004713 active site 1341692004714 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1341692004715 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 1341692004716 ring oligomerisation interface [polypeptide binding]; other site 1341692004717 ATP/Mg binding site [chemical binding]; other site 1341692004718 stacking interactions; other site 1341692004719 hinge regions; other site 1341692004720 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 1341692004721 oligomerisation interface [polypeptide binding]; other site 1341692004722 mobile loop; other site 1341692004723 roof hairpin; other site 1341692004724 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1341692004725 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1341692004726 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 1341692004727 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 1341692004728 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 1341692004729 catalytic loop [active] 1341692004730 iron binding site [ion binding]; other site 1341692004731 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1341692004732 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1341692004733 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 1341692004734 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1341692004735 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1341692004736 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 1341692004737 dimer interface [polypeptide binding]; other site 1341692004738 [2Fe-2S] cluster binding site [ion binding]; other site 1341692004739 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1341692004740 SLBB domain; Region: SLBB; pfam10531 1341692004741 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1341692004742 4Fe-4S binding domain; Region: Fer4; pfam00037 1341692004743 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1341692004744 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1341692004745 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 1341692004746 putative dimer interface [polypeptide binding]; other site 1341692004747 [2Fe-2S] cluster binding site [ion binding]; other site 1341692004748 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1341692004749 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 1341692004750 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1341692004751 minor groove reading motif; other site 1341692004752 helix-hairpin-helix signature motif; other site 1341692004753 substrate binding pocket [chemical binding]; other site 1341692004754 active site 1341692004755 putative bifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta; Provisional; Region: PRK12778 1341692004756 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 1341692004757 FAD binding pocket [chemical binding]; other site 1341692004758 FAD binding motif [chemical binding]; other site 1341692004759 phosphate binding motif [ion binding]; other site 1341692004760 beta-alpha-beta structure motif; other site 1341692004761 NAD binding pocket [chemical binding]; other site 1341692004762 Iron coordination center [ion binding]; other site 1341692004763 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1341692004764 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1341692004765 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1341692004766 CoA binding domain; Region: CoA_binding; pfam02629 1341692004767 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1341692004768 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692004769 Walker A/P-loop; other site 1341692004770 ATP binding site [chemical binding]; other site 1341692004771 Q-loop/lid; other site 1341692004772 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1341692004773 ABC transporter signature motif; other site 1341692004774 Walker B; other site 1341692004775 D-loop; other site 1341692004776 H-loop/switch region; other site 1341692004777 ABC transporter; Region: ABC_tran_2; pfam12848 1341692004778 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1341692004779 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1341692004780 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1341692004781 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1341692004782 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692004783 Walker A/P-loop; other site 1341692004784 ATP binding site [chemical binding]; other site 1341692004785 Q-loop/lid; other site 1341692004786 ABC transporter signature motif; other site 1341692004787 Walker B; other site 1341692004788 D-loop; other site 1341692004789 H-loop/switch region; other site 1341692004790 dihydroorotase; Validated; Region: pyrC; PRK09357 1341692004791 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 1341692004792 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 1341692004793 active site 1341692004794 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1341692004795 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1341692004796 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1341692004797 Domain of unknown function DUF77; Region: DUF77; pfam01910 1341692004798 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1341692004799 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 1341692004800 active site 1341692004801 phosphorylation site [posttranslational modification] 1341692004802 intermolecular recognition site; other site 1341692004803 dimerization interface [polypeptide binding]; other site 1341692004804 LytTr DNA-binding domain; Region: LytTR; pfam04397 1341692004805 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1341692004806 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1341692004807 Histidine kinase; Region: His_kinase; pfam06580 1341692004808 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 1341692004809 ATP binding site [chemical binding]; other site 1341692004810 Mg2+ binding site [ion binding]; other site 1341692004811 G-X-G motif; other site 1341692004812 Carbon starvation protein CstA; Region: CstA; pfam02554 1341692004813 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1341692004814 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1341692004815 Carbon starvation protein CstA; Region: CstA; pfam02554 1341692004816 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1341692004817 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1341692004818 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 1341692004819 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1341692004820 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1341692004821 Peptidase M16C associated; Region: M16C_assoc; pfam08367 1341692004822 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1341692004823 pyrroline-5-carboxylate reductase; Region: PLN02688 1341692004824 pyruvate carboxylase; Reviewed; Region: PRK12999 1341692004825 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1341692004826 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1341692004827 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1341692004828 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1341692004829 active site 1341692004830 catalytic residues [active] 1341692004831 metal binding site [ion binding]; metal-binding site 1341692004832 homodimer binding site [polypeptide binding]; other site 1341692004833 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 1341692004834 carboxyltransferase (CT) interaction site; other site 1341692004835 biotinylation site [posttranslational modification]; other site 1341692004836 UGMP family protein; Validated; Region: PRK09604 1341692004837 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1341692004838 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1341692004839 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1341692004840 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 1341692004841 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1341692004842 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1341692004843 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1341692004844 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1341692004845 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1341692004846 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 1341692004847 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 1341692004848 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1341692004849 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 1341692004850 catalytic loop [active] 1341692004851 iron binding site [ion binding]; other site 1341692004852 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1341692004853 nucleotide binding site [chemical binding]; other site 1341692004854 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 1341692004855 lipoyl attachment site [posttranslational modification]; other site 1341692004856 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 1341692004857 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 1341692004858 ACS interaction site; other site 1341692004859 CODH interaction site; other site 1341692004860 metal cluster binding site [ion binding]; other site 1341692004861 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 1341692004862 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 1341692004863 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1341692004864 substrate binding pocket [chemical binding]; other site 1341692004865 dimer interface [polypeptide binding]; other site 1341692004866 inhibitor binding site; inhibition site 1341692004867 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 1341692004868 Putative Fe-S cluster; Region: FeS; cl17515 1341692004869 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 1341692004870 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 1341692004871 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 1341692004872 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1341692004873 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1341692004874 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1341692004875 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1341692004876 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 1341692004877 FAD binding site [chemical binding]; other site 1341692004878 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 1341692004879 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 1341692004880 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1341692004881 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1341692004882 homodimer interface [polypeptide binding]; other site 1341692004883 NADP binding site [chemical binding]; other site 1341692004884 substrate binding site [chemical binding]; other site 1341692004885 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 1341692004886 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1341692004887 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 1341692004888 Potassium binding sites [ion binding]; other site 1341692004889 Cesium cation binding sites [ion binding]; other site 1341692004890 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 1341692004891 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 1341692004892 P-loop; other site 1341692004893 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 1341692004894 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 1341692004895 metal cluster binding site [ion binding]; other site 1341692004896 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 1341692004897 ACS interaction site; other site 1341692004898 CODH interaction site; other site 1341692004899 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 1341692004900 Ligand Binding Site [chemical binding]; other site 1341692004901 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 1341692004902 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 1341692004903 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1341692004904 DNA binding residues [nucleotide binding] 1341692004905 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 1341692004906 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1341692004907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692004908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692004909 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 1341692004910 putative dimerization interface [polypeptide binding]; other site 1341692004911 Predicted membrane protein [Function unknown]; Region: COG2855 1341692004912 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 1341692004913 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1341692004914 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1341692004915 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1341692004916 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1341692004917 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692004918 Walker A/P-loop; other site 1341692004919 ATP binding site [chemical binding]; other site 1341692004920 Q-loop/lid; other site 1341692004921 ABC transporter signature motif; other site 1341692004922 Walker B; other site 1341692004923 D-loop; other site 1341692004924 H-loop/switch region; other site 1341692004925 MOSC domain; Region: MOSC; pfam03473 1341692004926 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 1341692004927 S-adenosylmethionine binding site [chemical binding]; other site 1341692004928 putative molybdenum utilization protein ModD; Region: modD; TIGR01334 1341692004929 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 1341692004930 dimerization interface [polypeptide binding]; other site 1341692004931 active site 1341692004932 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692004933 Zn2+ binding site [ion binding]; other site 1341692004934 Mg2+ binding site [ion binding]; other site 1341692004935 CAAX protease self-immunity; Region: Abi; pfam02517 1341692004936 AAA domain; Region: AAA_17; cl17253 1341692004937 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1341692004938 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1341692004939 Divergent AAA domain; Region: AAA_4; pfam04326 1341692004940 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1341692004941 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 1341692004942 PLD-like domain; Region: PLDc_2; pfam13091 1341692004943 putative active site [active] 1341692004944 catalytic site [active] 1341692004945 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1341692004946 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 1341692004947 ATP binding site [chemical binding]; other site 1341692004948 putative Mg++ binding site [ion binding]; other site 1341692004949 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 1341692004950 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1341692004951 nucleotide binding region [chemical binding]; other site 1341692004952 ATP-binding site [chemical binding]; other site 1341692004953 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 1341692004954 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 1341692004955 Protein of unknown function (DUF3780); Region: DUF3780; pfam12635 1341692004956 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 1341692004957 Protein of unknown function (DUF499); Region: DUF499; pfam04465 1341692004958 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C_1; pfam13290 1341692004959 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 1341692004960 amidase catalytic site [active] 1341692004961 Zn binding residues [ion binding]; other site 1341692004962 substrate binding site [chemical binding]; other site 1341692004963 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1341692004964 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 1341692004965 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 1341692004966 YvrJ protein family; Region: YvrJ; pfam12841 1341692004967 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1341692004968 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1341692004969 Helix-turn-helix domain; Region: HTH_17; pfam12728 1341692004970 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 1341692004971 non-specific DNA binding site [nucleotide binding]; other site 1341692004972 salt bridge; other site 1341692004973 sequence-specific DNA binding site [nucleotide binding]; other site 1341692004974 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 1341692004975 non-specific DNA binding site [nucleotide binding]; other site 1341692004976 salt bridge; other site 1341692004977 sequence-specific DNA binding site [nucleotide binding]; other site 1341692004978 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1341692004979 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 1341692004980 non-specific DNA binding site [nucleotide binding]; other site 1341692004981 salt bridge; other site 1341692004982 sequence-specific DNA binding site [nucleotide binding]; other site 1341692004983 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1341692004984 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1341692004985 Int/Topo IB signature motif; other site 1341692004986 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 1341692004987 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1341692004988 intersubunit interface [polypeptide binding]; other site 1341692004989 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692004990 Zn2+ binding site [ion binding]; other site 1341692004991 Mg2+ binding site [ion binding]; other site 1341692004992 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1341692004993 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692004994 Zn2+ binding site [ion binding]; other site 1341692004995 Mg2+ binding site [ion binding]; other site 1341692004996 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1341692004997 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1341692004998 Glycoprotease family; Region: Peptidase_M22; pfam00814 1341692004999 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1341692005000 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692005001 Coenzyme A binding pocket [chemical binding]; other site 1341692005002 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1341692005003 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1341692005004 active site 1341692005005 HIGH motif; other site 1341692005006 dimer interface [polypeptide binding]; other site 1341692005007 KMSKS motif; other site 1341692005008 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 1341692005009 RNA binding surface [nucleotide binding]; other site 1341692005010 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1341692005011 Divergent AAA domain; Region: AAA_4; pfam04326 1341692005012 Probable zinc-binding domain; Region: zf-trcl; pfam13451 1341692005013 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 1341692005014 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 1341692005015 active site 1341692005016 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1341692005017 sugar phosphate phosphatase; Provisional; Region: PRK10513 1341692005018 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 1341692005019 active site 1341692005020 motif I; other site 1341692005021 motif II; other site 1341692005022 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 1341692005023 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 1341692005024 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1341692005025 G1 box; other site 1341692005026 putative GEF interaction site [polypeptide binding]; other site 1341692005027 GTP/Mg2+ binding site [chemical binding]; other site 1341692005028 Switch I region; other site 1341692005029 G2 box; other site 1341692005030 G3 box; other site 1341692005031 Switch II region; other site 1341692005032 G4 box; other site 1341692005033 G5 box; other site 1341692005034 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1341692005035 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1341692005036 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1341692005037 active site 1341692005038 HIGH motif; other site 1341692005039 dimer interface [polypeptide binding]; other site 1341692005040 KMSKS motif; other site 1341692005041 Putative glucoamylase; Region: Glycoamylase; pfam10091 1341692005042 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1341692005043 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1341692005044 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1341692005045 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1341692005046 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1341692005047 active site 1341692005048 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1341692005049 substrate binding site [chemical binding]; other site 1341692005050 catalytic residues [active] 1341692005051 dimer interface [polypeptide binding]; other site 1341692005052 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 1341692005053 putative allosteric regulatory site; other site 1341692005054 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 1341692005055 putative allosteric regulatory residue; other site 1341692005056 aspartate kinase; Reviewed; Region: PRK06635 1341692005057 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1341692005058 putative nucleotide binding site [chemical binding]; other site 1341692005059 putative catalytic residues [active] 1341692005060 putative Mg ion binding site [ion binding]; other site 1341692005061 putative aspartate binding site [chemical binding]; other site 1341692005062 biotin synthase; Provisional; Region: PRK07094 1341692005063 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 1341692005064 FeS/SAM binding site; other site 1341692005065 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 1341692005066 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1341692005067 Part of AAA domain; Region: AAA_19; pfam13245 1341692005068 Family description; Region: UvrD_C_2; pfam13538 1341692005069 FtsH Extracellular; Region: FtsH_ext; pfam06480 1341692005070 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1341692005071 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 1341692005072 Walker A motif; other site 1341692005073 ATP binding site [chemical binding]; other site 1341692005074 Walker B motif; other site 1341692005075 arginine finger; other site 1341692005076 Peptidase family M41; Region: Peptidase_M41; pfam01434 1341692005077 prolyl-tRNA synthetase; Provisional; Region: PRK08661 1341692005078 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 1341692005079 dimer interface [polypeptide binding]; other site 1341692005080 motif 1; other site 1341692005081 active site 1341692005082 motif 2; other site 1341692005083 motif 3; other site 1341692005084 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 1341692005085 anticodon binding site; other site 1341692005086 zinc-binding site [ion binding]; other site 1341692005087 GxGYxY sequence motif in domain of unknown function; Region: GxGYxYP; pfam14323 1341692005088 PilZ domain; Region: PilZ; pfam07238 1341692005089 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1341692005090 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1341692005091 NodB motif; other site 1341692005092 active site 1341692005093 catalytic site [active] 1341692005094 Zn binding site [ion binding]; other site 1341692005095 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1341692005096 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1341692005097 active site 1341692005098 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 1341692005099 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1341692005100 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1341692005101 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1341692005102 putative NAD(P) binding site [chemical binding]; other site 1341692005103 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1341692005104 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 1341692005105 active site 1341692005106 phosphorylation site [posttranslational modification] 1341692005107 intermolecular recognition site; other site 1341692005108 dimerization interface [polypeptide binding]; other site 1341692005109 sensory histidine kinase DcuS; Provisional; Region: PRK11086 1341692005110 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 1341692005111 ATP binding site [chemical binding]; other site 1341692005112 Mg2+ binding site [ion binding]; other site 1341692005113 G-X-G motif; other site 1341692005114 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1341692005115 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 1341692005116 non-specific DNA binding site [nucleotide binding]; other site 1341692005117 salt bridge; other site 1341692005118 sequence-specific DNA binding site [nucleotide binding]; other site 1341692005119 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1341692005120 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 1341692005121 DNA binding residues [nucleotide binding] 1341692005122 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1341692005123 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692005124 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1341692005125 Walker A/P-loop; other site 1341692005126 ATP binding site [chemical binding]; other site 1341692005127 Q-loop/lid; other site 1341692005128 ABC transporter signature motif; other site 1341692005129 Walker B; other site 1341692005130 D-loop; other site 1341692005131 H-loop/switch region; other site 1341692005132 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692005133 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 1341692005134 ATP binding site [chemical binding]; other site 1341692005135 Mg2+ binding site [ion binding]; other site 1341692005136 G-X-G motif; other site 1341692005137 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692005138 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 1341692005139 active site 1341692005140 phosphorylation site [posttranslational modification] 1341692005141 intermolecular recognition site; other site 1341692005142 dimerization interface [polypeptide binding]; other site 1341692005143 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 1341692005144 DNA binding site [nucleotide binding] 1341692005145 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1341692005146 Beta-lactamase; Region: Beta-lactamase; pfam00144 1341692005147 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 1341692005148 Chloramphenicol acetyltransferase; Region: CAT; cl02008 1341692005149 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: sialate_O-acetylesterase_like2; cd01828 1341692005150 active site 1341692005151 catalytic triad [active] 1341692005152 oxyanion hole [active] 1341692005153 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1341692005154 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1341692005155 Predicted transcriptional regulators [Transcription]; Region: COG1695 1341692005156 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 1341692005157 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1341692005158 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 1341692005159 non-specific DNA binding site [nucleotide binding]; other site 1341692005160 salt bridge; other site 1341692005161 sequence-specific DNA binding site [nucleotide binding]; other site 1341692005162 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1341692005163 Predicted transcriptional regulators [Transcription]; Region: COG1695 1341692005164 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 1341692005165 putative DNA binding site [nucleotide binding]; other site 1341692005166 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1341692005167 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 1341692005168 FMN binding site [chemical binding]; other site 1341692005169 active site 1341692005170 catalytic residues [active] 1341692005171 substrate binding site [chemical binding]; other site 1341692005172 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 1341692005173 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1341692005174 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1341692005175 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1341692005176 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1341692005177 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692005178 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692005179 metal binding site [ion binding]; metal-binding site 1341692005180 active site 1341692005181 I-site; other site 1341692005182 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1341692005183 Spore germination protein; Region: Spore_permease; cl17796 1341692005184 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1341692005185 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1341692005186 Predicted membrane protein [Function unknown]; Region: COG2246 1341692005187 GtrA-like protein; Region: GtrA; pfam04138 1341692005188 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1341692005189 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1341692005190 Ligand binding site; other site 1341692005191 Putative Catalytic site; other site 1341692005192 DXD motif; other site 1341692005193 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1341692005194 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1341692005195 acetolactate synthase; Reviewed; Region: PRK08322 1341692005196 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1341692005197 PYR/PP interface [polypeptide binding]; other site 1341692005198 dimer interface [polypeptide binding]; other site 1341692005199 TPP binding site [chemical binding]; other site 1341692005200 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1341692005201 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1341692005202 TPP-binding site [chemical binding]; other site 1341692005203 dimer interface [polypeptide binding]; other site 1341692005204 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1341692005205 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1341692005206 active site 1341692005207 NAD binding site [chemical binding]; other site 1341692005208 metal binding site [ion binding]; metal-binding site 1341692005209 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692005210 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692005211 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 1341692005212 dimerization interface [polypeptide binding]; other site 1341692005213 short chain dehydrogenase; Provisional; Region: PRK06138 1341692005214 classical (c) SDRs; Region: SDR_c; cd05233 1341692005215 NAD(P) binding site [chemical binding]; other site 1341692005216 active site 1341692005217 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1341692005218 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1341692005219 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1341692005220 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1341692005221 Spore germination protein; Region: Spore_permease; cl17796 1341692005222 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1341692005223 MarR family; Region: MarR_2; cl17246 1341692005224 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1341692005225 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692005226 Coenzyme A binding pocket [chemical binding]; other site 1341692005227 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 1341692005228 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692005229 Zn2+ binding site [ion binding]; other site 1341692005230 Mg2+ binding site [ion binding]; other site 1341692005231 Transmembrane protein 55A; Region: Tmemb_55A; pfam09788 1341692005232 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 1341692005233 SmpB-tmRNA interface; other site 1341692005234 ribonuclease R; Region: RNase_R; TIGR02063 1341692005235 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1341692005236 RNA binding site [nucleotide binding]; other site 1341692005237 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 1341692005238 RNB domain; Region: RNB; pfam00773 1341692005239 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 1341692005240 RNA binding site [nucleotide binding]; other site 1341692005241 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1341692005242 enolase; Provisional; Region: eno; PRK00077 1341692005243 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 1341692005244 dimer interface [polypeptide binding]; other site 1341692005245 metal binding site [ion binding]; metal-binding site 1341692005246 substrate binding pocket [chemical binding]; other site 1341692005247 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1341692005248 phosphoglyceromutase; Provisional; Region: PRK05434 1341692005249 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 1341692005250 triosephosphate isomerase; Provisional; Region: PRK14565 1341692005251 substrate binding site [chemical binding]; other site 1341692005252 dimer interface [polypeptide binding]; other site 1341692005253 catalytic triad [active] 1341692005254 Phosphoglycerate kinase; Region: PGK; pfam00162 1341692005255 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 1341692005256 substrate binding site [chemical binding]; other site 1341692005257 hinge regions; other site 1341692005258 ADP binding site [chemical binding]; other site 1341692005259 catalytic site [active] 1341692005260 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1341692005261 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1341692005262 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1341692005263 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1341692005264 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1341692005265 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1341692005266 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1341692005267 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1341692005268 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1341692005269 EDD domain protein, DegV family; Region: DegV; TIGR00762 1341692005270 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1341692005271 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1341692005272 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1341692005273 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 1341692005274 active site 1341692005275 metal binding site [ion binding]; metal-binding site 1341692005276 Uncharacterized conserved protein [Function unknown]; Region: COG5663 1341692005277 EamA-like transporter family; Region: EamA; pfam00892 1341692005278 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1341692005279 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1341692005280 VanW like protein; Region: VanW; pfam04294 1341692005281 competence damage-inducible protein A; Provisional; Region: PRK00549 1341692005282 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 1341692005283 putative MPT binding site; other site 1341692005284 Competence-damaged protein; Region: CinA; pfam02464 1341692005285 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1341692005286 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1341692005287 helix-hairpin-helix signature motif; other site 1341692005288 substrate binding pocket [chemical binding]; other site 1341692005289 active site 1341692005290 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1341692005291 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1341692005292 minor groove reading motif; other site 1341692005293 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1341692005294 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1341692005295 putative acyl-acceptor binding pocket; other site 1341692005296 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1341692005297 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1341692005298 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 1341692005299 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 1341692005300 trimer interface [polypeptide binding]; other site 1341692005301 active site 1341692005302 substrate binding site [chemical binding]; other site 1341692005303 CoA binding site [chemical binding]; other site 1341692005304 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1341692005305 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 1341692005306 dimer interface [polypeptide binding]; other site 1341692005307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692005308 catalytic residue [active] 1341692005309 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1341692005310 Bacterial Ig-like domain; Region: Big_5; pfam13205 1341692005311 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1341692005312 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 1341692005313 Rubredoxin; Region: Rubredoxin; pfam00301 1341692005314 iron binding site [ion binding]; other site 1341692005315 Rubrerythrin [Energy production and conversion]; Region: COG1592 1341692005316 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 1341692005317 diiron binding motif [ion binding]; other site 1341692005318 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 1341692005319 active site 2 [active] 1341692005320 active site 1 [active] 1341692005321 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 1341692005322 D-galactonate transporter; Region: 2A0114; TIGR00893 1341692005323 putative substrate translocation pore; other site 1341692005324 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692005325 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692005326 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1341692005327 dimerization interface [polypeptide binding]; other site 1341692005328 short chain acyl-CoA synthetase; Reviewed; Region: PRK06087 1341692005329 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 1341692005330 acyl-activating enzyme (AAE) consensus motif; other site 1341692005331 putative AMP binding site [chemical binding]; other site 1341692005332 putative active site [active] 1341692005333 putative CoA binding site [chemical binding]; other site 1341692005334 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1341692005335 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1341692005336 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1341692005337 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1341692005338 Ligand binding site [chemical binding]; other site 1341692005339 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1341692005340 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1341692005341 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1341692005342 active site 1341692005343 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1341692005344 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1341692005345 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1341692005346 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1341692005347 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1341692005348 active site 1341692005349 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1341692005350 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1341692005351 Uncharacterized conserved protein [Function unknown]; Region: COG1633 1341692005352 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1341692005353 dinuclear metal binding motif [ion binding]; other site 1341692005354 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1341692005355 tartrate dehydrogenase; Region: TTC; TIGR02089 1341692005356 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692005357 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 1341692005358 active site 1341692005359 phosphorylation site [posttranslational modification] 1341692005360 intermolecular recognition site; other site 1341692005361 dimerization interface [polypeptide binding]; other site 1341692005362 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 1341692005363 DNA binding site [nucleotide binding] 1341692005364 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1341692005365 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1341692005366 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1341692005367 Ligand Binding Site [chemical binding]; other site 1341692005368 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1341692005369 GAF domain; Region: GAF_3; pfam13492 1341692005370 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 1341692005371 phosphorylation site [posttranslational modification] 1341692005372 dimer interface [polypeptide binding]; other site 1341692005373 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 1341692005374 ATP binding site [chemical binding]; other site 1341692005375 Mg2+ binding site [ion binding]; other site 1341692005376 G-X-G motif; other site 1341692005377 potassium-transporting ATPase subunit C; Provisional; Region: PRK13995 1341692005378 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1341692005379 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1341692005380 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1341692005381 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1341692005382 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1341692005383 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1341692005384 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 1341692005385 active site 1341692005386 multimer interface [polypeptide binding]; other site 1341692005387 imidazole glycerol phosphate synthase subunit hisH; Provisional; Region: hisH; CHL00188 1341692005388 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1341692005389 predicted active site [active] 1341692005390 catalytic triad [active] 1341692005391 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1341692005392 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 1341692005393 TM-ABC transporter signature motif; other site 1341692005394 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1341692005395 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 1341692005396 TM-ABC transporter signature motif; other site 1341692005397 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1341692005398 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1341692005399 Walker A/P-loop; other site 1341692005400 ATP binding site [chemical binding]; other site 1341692005401 Q-loop/lid; other site 1341692005402 ABC transporter signature motif; other site 1341692005403 Walker B; other site 1341692005404 D-loop; other site 1341692005405 H-loop/switch region; other site 1341692005406 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1341692005407 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1341692005408 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1341692005409 putative ligand binding site [chemical binding]; other site 1341692005410 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1341692005411 active site 1341692005412 intersubunit interactions; other site 1341692005413 catalytic residue [active] 1341692005414 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 1341692005415 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 1341692005416 Phosphotransferase enzyme family; Region: APH; pfam01636 1341692005417 active site 1341692005418 ATP binding site [chemical binding]; other site 1341692005419 substrate binding site [chemical binding]; other site 1341692005420 dimer interface [polypeptide binding]; other site 1341692005421 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1341692005422 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 1341692005423 putative active site [active] 1341692005424 metal binding site [ion binding]; metal-binding site 1341692005425 Histidine kinase; Region: His_kinase; pfam06580 1341692005426 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1341692005427 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 1341692005428 ATP binding site [chemical binding]; other site 1341692005429 Mg2+ binding site [ion binding]; other site 1341692005430 G-X-G motif; other site 1341692005431 Response regulator receiver domain; Region: Response_reg; pfam00072 1341692005432 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 1341692005433 active site 1341692005434 phosphorylation site [posttranslational modification] 1341692005435 intermolecular recognition site; other site 1341692005436 dimerization interface [polypeptide binding]; other site 1341692005437 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692005438 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1341692005439 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692005440 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1341692005441 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 1341692005442 Hexamer interface [polypeptide binding]; other site 1341692005443 Putative hexagonal pore residue; other site 1341692005444 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1341692005445 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 1341692005446 Hexamer interface [polypeptide binding]; other site 1341692005447 Putative hexagonal pore residue; other site 1341692005448 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 1341692005449 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1341692005450 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1341692005451 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1341692005452 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1341692005453 putative catalytic cysteine [active] 1341692005454 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1341692005455 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 1341692005456 Hexamer interface [polypeptide binding]; other site 1341692005457 Hexagonal pore residue; other site 1341692005458 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 1341692005459 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 1341692005460 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 1341692005461 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 1341692005462 putative hexamer interface [polypeptide binding]; other site 1341692005463 putative hexagonal pore; other site 1341692005464 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 1341692005465 putative hexamer interface [polypeptide binding]; other site 1341692005466 putative hexagonal pore; other site 1341692005467 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 1341692005468 SLBB domain; Region: SLBB; pfam10531 1341692005469 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 1341692005470 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 1341692005471 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 1341692005472 Hexamer/Pentamer interface [polypeptide binding]; other site 1341692005473 central pore; other site 1341692005474 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 1341692005475 Hexamer interface [polypeptide binding]; other site 1341692005476 Hexagonal pore residue; other site 1341692005477 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 1341692005478 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1341692005479 nucleotide binding site [chemical binding]; other site 1341692005480 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1341692005481 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 1341692005482 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1341692005483 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 1341692005484 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 1341692005485 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1341692005486 dimer interface [polypeptide binding]; other site 1341692005487 active site 1341692005488 glycine loop; other site 1341692005489 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1341692005490 putative catalytic cysteine [active] 1341692005491 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 1341692005492 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1341692005493 Hexamer interface [polypeptide binding]; other site 1341692005494 Hexagonal pore residue; other site 1341692005495 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1341692005496 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 1341692005497 Hexamer interface [polypeptide binding]; other site 1341692005498 Hexagonal pore residue; other site 1341692005499 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1341692005500 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 1341692005501 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 1341692005502 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 1341692005503 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1341692005504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692005505 DNA-binding site [nucleotide binding]; DNA binding site 1341692005506 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 1341692005507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692005508 homodimer interface [polypeptide binding]; other site 1341692005509 catalytic residue [active] 1341692005510 LysE type translocator; Region: LysE; cl00565 1341692005511 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 1341692005512 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1341692005513 putative substrate translocation pore; other site 1341692005514 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1341692005515 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1341692005516 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1341692005517 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 1341692005518 putative active site [active] 1341692005519 metal binding site [ion binding]; metal-binding site 1341692005520 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1341692005521 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1341692005522 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692005523 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 1341692005524 dimer interface [polypeptide binding]; other site 1341692005525 phosphorylation site [posttranslational modification] 1341692005526 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 1341692005527 ATP binding site [chemical binding]; other site 1341692005528 Mg2+ binding site [ion binding]; other site 1341692005529 G-X-G motif; other site 1341692005530 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692005531 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 1341692005532 active site 1341692005533 phosphorylation site [posttranslational modification] 1341692005534 intermolecular recognition site; other site 1341692005535 dimerization interface [polypeptide binding]; other site 1341692005536 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 1341692005537 DNA binding site [nucleotide binding] 1341692005538 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692005539 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1341692005540 Walker A/P-loop; other site 1341692005541 ATP binding site [chemical binding]; other site 1341692005542 Q-loop/lid; other site 1341692005543 ABC transporter signature motif; other site 1341692005544 Walker B; other site 1341692005545 D-loop; other site 1341692005546 H-loop/switch region; other site 1341692005547 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1341692005548 Putative amidase domain; Region: Amidase_6; pfam12671 1341692005549 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 1341692005550 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 1341692005551 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1341692005552 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1341692005553 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692005554 Walker A/P-loop; other site 1341692005555 ATP binding site [chemical binding]; other site 1341692005556 Q-loop/lid; other site 1341692005557 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1341692005558 ABC transporter signature motif; other site 1341692005559 ABC transporter; Region: ABC_tran_2; pfam12848 1341692005560 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1341692005561 Mor transcription activator family; Region: Mor; cl02360 1341692005562 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1341692005563 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1341692005564 DNA binding residues [nucleotide binding] 1341692005565 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1341692005566 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1341692005567 DNA binding residues [nucleotide binding] 1341692005568 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1341692005569 Peptidase family M28; Region: Peptidase_M28; pfam04389 1341692005570 metal binding site [ion binding]; metal-binding site 1341692005571 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1341692005572 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1341692005573 DNA binding residues [nucleotide binding] 1341692005574 drug binding residues [chemical binding]; other site 1341692005575 dimer interface [polypeptide binding]; other site 1341692005576 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 1341692005577 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1341692005578 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1341692005579 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1341692005580 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 1341692005581 non-specific DNA binding site [nucleotide binding]; other site 1341692005582 salt bridge; other site 1341692005583 sequence-specific DNA binding site [nucleotide binding]; other site 1341692005584 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 1341692005585 Flavoprotein; Region: Flavoprotein; pfam02441 1341692005586 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1341692005587 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1341692005588 NodB motif; other site 1341692005589 active site 1341692005590 catalytic site [active] 1341692005591 Zn binding site [ion binding]; other site 1341692005592 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1341692005593 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1341692005594 active site 1341692005595 metal binding site [ion binding]; metal-binding site 1341692005596 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1341692005597 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1341692005598 oxidoreductase; Provisional; Region: PRK10015 1341692005599 4Fe-4S binding domain; Region: Fer4; pfam00037 1341692005600 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1341692005601 4Fe-4S binding domain; Region: Fer4; pfam00037 1341692005602 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1341692005603 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1341692005604 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1341692005605 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1341692005606 Ligand binding site [chemical binding]; other site 1341692005607 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1341692005608 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 1341692005609 metal-binding site [ion binding] 1341692005610 Uncharacterized conserved protein [Function unknown]; Region: COG2836 1341692005611 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1341692005612 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1341692005613 OsmC-like protein; Region: OsmC; pfam02566 1341692005614 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692005615 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 1341692005616 dimer interface [polypeptide binding]; other site 1341692005617 phosphorylation site [posttranslational modification] 1341692005618 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 1341692005619 ATP binding site [chemical binding]; other site 1341692005620 Mg2+ binding site [ion binding]; other site 1341692005621 G-X-G motif; other site 1341692005622 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692005623 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 1341692005624 active site 1341692005625 phosphorylation site [posttranslational modification] 1341692005626 intermolecular recognition site; other site 1341692005627 dimerization interface [polypeptide binding]; other site 1341692005628 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 1341692005629 DNA binding site [nucleotide binding] 1341692005630 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1341692005631 UbiA prenyltransferase family; Region: UbiA; pfam01040 1341692005632 CAAX protease self-immunity; Region: Abi; pfam02517 1341692005633 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1341692005634 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 1341692005635 S-adenosylmethionine binding site [chemical binding]; other site 1341692005636 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1341692005637 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1341692005638 substrate binding pocket [chemical binding]; other site 1341692005639 chain length determination region; other site 1341692005640 substrate-Mg2+ binding site; other site 1341692005641 catalytic residues [active] 1341692005642 aspartate-rich region 1; other site 1341692005643 active site lid residues [active] 1341692005644 aspartate-rich region 2; other site 1341692005645 YtkA-like; Region: YtkA; pfam13115 1341692005646 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1341692005647 UPF0126 domain; Region: UPF0126; pfam03458 1341692005648 Predicted membrane protein [Function unknown]; Region: COG2860 1341692005649 UPF0126 domain; Region: UPF0126; pfam03458 1341692005650 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1341692005651 threonine synthase; Validated; Region: PRK06260 1341692005652 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 1341692005653 iron binding site [ion binding]; other site 1341692005654 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 1341692005655 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1341692005656 catalytic residue [active] 1341692005657 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1341692005658 homotrimer interaction site [polypeptide binding]; other site 1341692005659 putative active site [active] 1341692005660 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1341692005661 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 1341692005662 putative active site [active] 1341692005663 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 1341692005664 Walker A motif; other site 1341692005665 ATP binding site [chemical binding]; other site 1341692005666 Walker B motif; other site 1341692005667 arginine finger; other site 1341692005668 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1341692005669 DNA-binding interface [nucleotide binding]; DNA binding site 1341692005670 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1341692005671 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 1341692005672 glutaminase active site [active] 1341692005673 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 1341692005674 dimer interface [polypeptide binding]; other site 1341692005675 active site 1341692005676 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 1341692005677 dimer interface [polypeptide binding]; other site 1341692005678 active site 1341692005679 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 1341692005680 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1341692005681 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 1341692005682 active site 1341692005683 substrate binding site [chemical binding]; other site 1341692005684 metal binding site [ion binding]; metal-binding site 1341692005685 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1341692005686 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1341692005687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1341692005688 YbbR-like protein; Region: YbbR; pfam07949 1341692005689 YbbR-like protein; Region: YbbR; pfam07949 1341692005690 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1341692005691 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1341692005692 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1341692005693 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1341692005694 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 1341692005695 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1341692005696 catalytic residues [active] 1341692005697 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1341692005698 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1341692005699 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1341692005700 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1341692005701 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1341692005702 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 1341692005703 TPR motif; other site 1341692005704 binding surface 1341692005705 TPR repeat; Region: TPR_11; pfam13414 1341692005706 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 1341692005707 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1341692005708 active site 1341692005709 nucleotide binding site [chemical binding]; other site 1341692005710 HIGH motif; other site 1341692005711 KMSKS motif; other site 1341692005712 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 1341692005713 Coenzyme A transferase; Region: CoA_trans; cl17247 1341692005714 Coenzyme A transferase; Region: CoA_trans; cl17247 1341692005715 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1341692005716 citrate lyase subunit gamma; Provisional; Region: PRK13253 1341692005717 fumarate hydratase; Provisional; Region: PRK06842 1341692005718 fumarate hydratase; Provisional; Region: PRK06246 1341692005719 methylaspartate ammonia-lyase; Region: B_methylAsp_ase; TIGR01502 1341692005720 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 1341692005721 dimer interface [polypeptide binding]; other site 1341692005722 active site 1341692005723 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 1341692005724 substrate binding site [chemical binding]; other site 1341692005725 B12 cofactor binding site [chemical binding]; other site 1341692005726 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 1341692005727 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 1341692005728 conserved hypothetical protein; Region: glmL_fam; TIGR01319 1341692005729 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 1341692005730 B12 binding site [chemical binding]; other site 1341692005731 heterodimer interface [polypeptide binding]; other site 1341692005732 cobalt ligand [ion binding]; other site 1341692005733 Predicted transcriptional regulators [Transcription]; Region: COG1725 1341692005734 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692005735 DNA-binding site [nucleotide binding]; DNA binding site 1341692005736 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1341692005737 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1341692005738 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 1341692005739 Walker A motif; other site 1341692005740 ATP binding site [chemical binding]; other site 1341692005741 Walker B motif; other site 1341692005742 arginine finger; other site 1341692005743 HTH domain; Region: HTH_11; pfam08279 1341692005744 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1341692005745 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1341692005746 catalytic triad [active] 1341692005747 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1341692005748 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 1341692005749 active site 1341692005750 metal binding site [ion binding]; metal-binding site 1341692005751 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1341692005752 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 1341692005753 23S rRNA interface [nucleotide binding]; other site 1341692005754 L3 interface [polypeptide binding]; other site 1341692005755 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1341692005756 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1341692005757 dimerization interface 3.5A [polypeptide binding]; other site 1341692005758 active site 1341692005759 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1341692005760 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 1341692005761 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1341692005762 Walker A/P-loop; other site 1341692005763 ATP binding site [chemical binding]; other site 1341692005764 Q-loop/lid; other site 1341692005765 ABC transporter signature motif; other site 1341692005766 Walker B; other site 1341692005767 D-loop; other site 1341692005768 H-loop/switch region; other site 1341692005769 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 1341692005770 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1341692005771 Walker A/P-loop; other site 1341692005772 ATP binding site [chemical binding]; other site 1341692005773 Q-loop/lid; other site 1341692005774 ABC transporter signature motif; other site 1341692005775 Walker B; other site 1341692005776 D-loop; other site 1341692005777 H-loop/switch region; other site 1341692005778 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1341692005779 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1341692005780 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1341692005781 alphaNTD - beta interaction site [polypeptide binding]; other site 1341692005782 alphaNTD homodimer interface [polypeptide binding]; other site 1341692005783 alphaNTD - beta' interaction site [polypeptide binding]; other site 1341692005784 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1341692005785 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1341692005786 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1341692005787 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 1341692005788 RNA binding surface [nucleotide binding]; other site 1341692005789 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1341692005790 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1341692005791 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1341692005792 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 1341692005793 rRNA binding site [nucleotide binding]; other site 1341692005794 predicted 30S ribosome binding site; other site 1341692005795 adenylate kinase; Reviewed; Region: adk; PRK00279 1341692005796 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 1341692005797 AMP-binding site [chemical binding]; other site 1341692005798 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1341692005799 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1341692005800 SecY translocase; Region: SecY; pfam00344 1341692005801 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1341692005802 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 1341692005803 23S rRNA binding site [nucleotide binding]; other site 1341692005804 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1341692005805 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1341692005806 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1341692005807 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 1341692005808 23S rRNA interface [nucleotide binding]; other site 1341692005809 5S rRNA interface [nucleotide binding]; other site 1341692005810 L27 interface [polypeptide binding]; other site 1341692005811 L5 interface [polypeptide binding]; other site 1341692005812 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1341692005813 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1341692005814 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1341692005815 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1341692005816 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1341692005817 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1341692005818 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1341692005819 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1341692005820 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1341692005821 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1341692005822 RNA binding site [nucleotide binding]; other site 1341692005823 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1341692005824 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1341692005825 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 1341692005826 23S rRNA interface [nucleotide binding]; other site 1341692005827 putative translocon interaction site; other site 1341692005828 signal recognition particle (SRP54) interaction site; other site 1341692005829 L23 interface [polypeptide binding]; other site 1341692005830 trigger factor interaction site; other site 1341692005831 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 1341692005832 23S rRNA interface [nucleotide binding]; other site 1341692005833 5S rRNA interface [nucleotide binding]; other site 1341692005834 putative antibiotic binding site [chemical binding]; other site 1341692005835 L25 interface [polypeptide binding]; other site 1341692005836 L27 interface [polypeptide binding]; other site 1341692005837 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1341692005838 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 1341692005839 G-X-X-G motif; other site 1341692005840 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1341692005841 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 1341692005842 putative translocon binding site; other site 1341692005843 protein-rRNA interface [nucleotide binding]; other site 1341692005844 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1341692005845 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1341692005846 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1341692005847 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1341692005848 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1341692005849 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1341692005850 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1341692005851 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1341692005852 elongation factor Tu; Reviewed; Region: PRK00049 1341692005853 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1341692005854 G1 box; other site 1341692005855 GEF interaction site [polypeptide binding]; other site 1341692005856 GTP/Mg2+ binding site [chemical binding]; other site 1341692005857 Switch I region; other site 1341692005858 G2 box; other site 1341692005859 G3 box; other site 1341692005860 Switch II region; other site 1341692005861 G4 box; other site 1341692005862 G5 box; other site 1341692005863 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 1341692005864 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 1341692005865 Antibiotic Binding Site [chemical binding]; other site 1341692005866 elongation factor G; Reviewed; Region: PRK00007 1341692005867 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1341692005868 G1 box; other site 1341692005869 putative GEF interaction site [polypeptide binding]; other site 1341692005870 GTP/Mg2+ binding site [chemical binding]; other site 1341692005871 Switch I region; other site 1341692005872 G2 box; other site 1341692005873 G3 box; other site 1341692005874 Switch II region; other site 1341692005875 G4 box; other site 1341692005876 G5 box; other site 1341692005877 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 1341692005878 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 1341692005879 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 1341692005880 30S ribosomal protein S7; Validated; Region: PRK05302 1341692005881 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 1341692005882 S17 interaction site [polypeptide binding]; other site 1341692005883 S8 interaction site; other site 1341692005884 16S rRNA interaction site [nucleotide binding]; other site 1341692005885 streptomycin interaction site [chemical binding]; other site 1341692005886 23S rRNA interaction site [nucleotide binding]; other site 1341692005887 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1341692005888 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1341692005889 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1341692005890 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1341692005891 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1341692005892 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1341692005893 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1341692005894 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1341692005895 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1341692005896 G-loop; other site 1341692005897 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 1341692005898 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1341692005899 DNA binding site [nucleotide binding] 1341692005900 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1341692005901 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 1341692005902 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1341692005903 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 1341692005904 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1341692005905 RPB1 interaction site [polypeptide binding]; other site 1341692005906 RPB10 interaction site [polypeptide binding]; other site 1341692005907 RPB11 interaction site [polypeptide binding]; other site 1341692005908 RPB3 interaction site [polypeptide binding]; other site 1341692005909 RPB12 interaction site [polypeptide binding]; other site 1341692005910 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 1341692005911 core dimer interface [polypeptide binding]; other site 1341692005912 peripheral dimer interface [polypeptide binding]; other site 1341692005913 L10 interface [polypeptide binding]; other site 1341692005914 L11 interface [polypeptide binding]; other site 1341692005915 putative EF-Tu interaction site [polypeptide binding]; other site 1341692005916 putative EF-G interaction site [polypeptide binding]; other site 1341692005917 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 1341692005918 23S rRNA interface [nucleotide binding]; other site 1341692005919 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1341692005920 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 1341692005921 mRNA/rRNA interface [nucleotide binding]; other site 1341692005922 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1341692005923 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 1341692005924 23S rRNA interface [nucleotide binding]; other site 1341692005925 L7/L12 interface [polypeptide binding]; other site 1341692005926 putative thiostrepton binding site; other site 1341692005927 L25 interface [polypeptide binding]; other site 1341692005928 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1341692005929 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1341692005930 putative homodimer interface [polypeptide binding]; other site 1341692005931 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1341692005932 heterodimer interface [polypeptide binding]; other site 1341692005933 homodimer interface [polypeptide binding]; other site 1341692005934 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 1341692005935 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1341692005936 elongation factor Tu; Reviewed; Region: PRK00049 1341692005937 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1341692005938 G1 box; other site 1341692005939 GEF interaction site [polypeptide binding]; other site 1341692005940 GTP/Mg2+ binding site [chemical binding]; other site 1341692005941 Switch I region; other site 1341692005942 G2 box; other site 1341692005943 G3 box; other site 1341692005944 Switch II region; other site 1341692005945 G4 box; other site 1341692005946 G5 box; other site 1341692005947 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 1341692005948 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 1341692005949 Antibiotic Binding Site [chemical binding]; other site 1341692005950 RNA polymerase sigma-H factor; Region: spore_sigH; TIGR02859 1341692005951 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692005952 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1341692005953 YacP-like NYN domain; Region: NYN_YacP; pfam05991 1341692005954 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1341692005955 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1341692005956 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1341692005957 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 1341692005958 dimerization interface [polypeptide binding]; other site 1341692005959 active site 1341692005960 metal binding site [ion binding]; metal-binding site 1341692005961 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1341692005962 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1341692005963 active site 1341692005964 HIGH motif; other site 1341692005965 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1341692005966 KMSKS motif; other site 1341692005967 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1341692005968 tRNA binding surface [nucleotide binding]; other site 1341692005969 anticodon binding site; other site 1341692005970 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1341692005971 substrate binding site; other site 1341692005972 dimer interface; other site 1341692005973 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 1341692005974 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 1341692005975 putative active site [active] 1341692005976 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1341692005977 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 1341692005978 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1341692005979 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 1341692005980 Helix-hairpin-helix motif; Region: HHH; pfam00633 1341692005981 DNA repair protein RadA; Provisional; Region: PRK11823 1341692005982 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 1341692005983 Walker A motif/ATP binding site; other site 1341692005984 ATP binding site [chemical binding]; other site 1341692005985 Walker B motif; other site 1341692005986 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1341692005987 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1341692005988 Clp amino terminal domain; Region: Clp_N; pfam02861 1341692005989 Clp amino terminal domain; Region: Clp_N; pfam02861 1341692005990 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 1341692005991 Walker A motif; other site 1341692005992 ATP binding site [chemical binding]; other site 1341692005993 Walker B motif; other site 1341692005994 arginine finger; other site 1341692005995 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 1341692005996 Walker A motif; other site 1341692005997 ATP binding site [chemical binding]; other site 1341692005998 Walker B motif; other site 1341692005999 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1341692006000 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 1341692006001 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 1341692006002 ADP binding site [chemical binding]; other site 1341692006003 phosphagen binding site; other site 1341692006004 substrate specificity loop; other site 1341692006005 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 1341692006006 UvrB/uvrC motif; Region: UVR; pfam02151 1341692006007 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 1341692006008 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 1341692006009 elongation factor G; Reviewed; Region: PRK12740 1341692006010 G1 box; other site 1341692006011 putative GEF interaction site [polypeptide binding]; other site 1341692006012 GTP/Mg2+ binding site [chemical binding]; other site 1341692006013 Switch I region; other site 1341692006014 G2 box; other site 1341692006015 G3 box; other site 1341692006016 Switch II region; other site 1341692006017 G4 box; other site 1341692006018 G5 box; other site 1341692006019 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 1341692006020 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 1341692006021 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 1341692006022 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01710 1341692006023 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1341692006024 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1341692006025 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 1341692006026 motif 1; other site 1341692006027 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 1341692006028 active site 1341692006029 motif 2; other site 1341692006030 motif 3; other site 1341692006031 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 1341692006032 anticodon binding site; other site 1341692006033 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1341692006034 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 1341692006035 dimer interface [polypeptide binding]; other site 1341692006036 putative anticodon binding site; other site 1341692006037 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 1341692006038 motif 1; other site 1341692006039 active site 1341692006040 motif 2; other site 1341692006041 motif 3; other site 1341692006042 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1341692006043 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1341692006044 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1341692006045 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1341692006046 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 1341692006047 FMN binding site [chemical binding]; other site 1341692006048 active site 1341692006049 catalytic residues [active] 1341692006050 substrate binding site [chemical binding]; other site 1341692006051 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1341692006052 nucleotide binding site [chemical binding]; other site 1341692006053 Type III pantothenate kinase; Region: Pan_kinase; cl17198 1341692006054 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1341692006055 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 1341692006056 Walker A motif; other site 1341692006057 ATP binding site [chemical binding]; other site 1341692006058 Walker B motif; other site 1341692006059 arginine finger; other site 1341692006060 Peptidase family M41; Region: Peptidase_M41; pfam01434 1341692006061 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1341692006062 active site 1341692006063 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1341692006064 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 1341692006065 Ligand Binding Site [chemical binding]; other site 1341692006066 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1341692006067 stage II sporulation protein E; Region: spore_II_E; TIGR02865 1341692006068 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1341692006069 hypothetical protein; Provisional; Region: PRK05807 1341692006070 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 1341692006071 RNA binding site [nucleotide binding]; other site 1341692006072 Septum formation initiator; Region: DivIC; pfam04977 1341692006073 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 1341692006074 YabP family; Region: YabP; cl06766 1341692006075 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 1341692006076 RNA binding surface [nucleotide binding]; other site 1341692006077 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 1341692006078 IHF dimer interface [polypeptide binding]; other site 1341692006079 IHF - DNA interface [nucleotide binding]; other site 1341692006080 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 1341692006081 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 1341692006082 putative SAM binding site [chemical binding]; other site 1341692006083 putative homodimer interface [polypeptide binding]; other site 1341692006084 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 1341692006085 homodimer interface [polypeptide binding]; other site 1341692006086 metal binding site [ion binding]; metal-binding site 1341692006087 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 1341692006088 homodimer interface [polypeptide binding]; other site 1341692006089 active site 1341692006090 putative chemical substrate binding site [chemical binding]; other site 1341692006091 metal binding site [ion binding]; metal-binding site 1341692006092 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1341692006093 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1341692006094 stage V sporulation protein T; Region: spore_V_T; TIGR02851 1341692006095 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1341692006096 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1341692006097 SurA N-terminal domain; Region: SurA_N_3; cl07813 1341692006098 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1341692006099 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1341692006100 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1341692006101 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 1341692006102 ATP binding site [chemical binding]; other site 1341692006103 putative Mg++ binding site [ion binding]; other site 1341692006104 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 1341692006105 nucleotide binding region [chemical binding]; other site 1341692006106 ATP-binding site [chemical binding]; other site 1341692006107 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1341692006108 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 1341692006109 putative active site [active] 1341692006110 catalytic residue [active] 1341692006111 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1341692006112 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1341692006113 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 1341692006114 protein binding site [polypeptide binding]; other site 1341692006115 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692006116 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 1341692006117 dimerization interface [polypeptide binding]; other site 1341692006118 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 1341692006119 dimer interface [polypeptide binding]; other site 1341692006120 phosphorylation site [posttranslational modification] 1341692006121 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 1341692006122 ATP binding site [chemical binding]; other site 1341692006123 Mg2+ binding site [ion binding]; other site 1341692006124 G-X-G motif; other site 1341692006125 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692006126 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 1341692006127 active site 1341692006128 phosphorylation site [posttranslational modification] 1341692006129 intermolecular recognition site; other site 1341692006130 dimerization interface [polypeptide binding]; other site 1341692006131 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 1341692006132 DNA binding site [nucleotide binding] 1341692006133 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1341692006134 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1341692006135 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1341692006136 active site 1341692006137 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1341692006138 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1341692006139 Substrate binding site; other site 1341692006140 Mg++ binding site; other site 1341692006141 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 1341692006142 active site 1341692006143 substrate binding site [chemical binding]; other site 1341692006144 CoA binding site [chemical binding]; other site 1341692006145 regulatory protein SpoVG; Reviewed; Region: PRK13259 1341692006146 pur operon repressor; Provisional; Region: PRK09213 1341692006147 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1341692006148 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1341692006149 active site 1341692006150 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1341692006151 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1341692006152 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1341692006153 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1341692006154 CAAX protease self-immunity; Region: Abi; pfam02517 1341692006155 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1341692006156 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 1341692006157 non-specific DNA binding site [nucleotide binding]; other site 1341692006158 salt bridge; other site 1341692006159 sequence-specific DNA binding site [nucleotide binding]; other site 1341692006160 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1341692006161 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1341692006162 2-phosphosulfolactate phosphatase; Provisional; Region: PRK00886 1341692006163 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 1341692006164 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1341692006165 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 1341692006166 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1341692006167 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1341692006168 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 1341692006169 FeS/SAM binding site; other site 1341692006170 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1341692006171 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 1341692006172 non-specific DNA binding site [nucleotide binding]; other site 1341692006173 salt bridge; other site 1341692006174 sequence-specific DNA binding site [nucleotide binding]; other site 1341692006175 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 1341692006176 Catalytic site [active] 1341692006177 glutamate racemase; Provisional; Region: PRK00865 1341692006178 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1341692006179 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1341692006180 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 1341692006181 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1341692006182 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 1341692006183 hinge; other site 1341692006184 active site 1341692006185 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1341692006186 CxxH/CxxC protein, BA_5709 family; Region: CxxH_BA5709; TIGR04129 1341692006187 hypothetical protein; Provisional; Region: PRK05590 1341692006188 hypothetical protein; Provisional; Region: PRK05590 1341692006189 SEC-C motif; Region: SEC-C; pfam02810 1341692006190 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1341692006191 Interdomain contacts; other site 1341692006192 Cytokine receptor motif; other site 1341692006193 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1341692006194 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1341692006195 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1341692006196 putative dimer interface [polypeptide binding]; other site 1341692006197 putative anticodon binding site; other site 1341692006198 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1341692006199 homodimer interface [polypeptide binding]; other site 1341692006200 motif 1; other site 1341692006201 motif 2; other site 1341692006202 active site 1341692006203 motif 3; other site 1341692006204 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 1341692006205 dUTPase; Region: dUTPase_2; pfam08761 1341692006206 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 1341692006207 active site 1341692006208 homodimer interface [polypeptide binding]; other site 1341692006209 metal binding site [ion binding]; metal-binding site 1341692006210 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1341692006211 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692006212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692006213 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1341692006214 dimerization interface [polypeptide binding]; other site 1341692006215 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1341692006216 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1341692006217 active site 1341692006218 catalytic residues [active] 1341692006219 Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family; Region: PGDH_1; cd12155 1341692006220 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1341692006221 putative ligand binding site [chemical binding]; other site 1341692006222 NAD binding site [chemical binding]; other site 1341692006223 catalytic site [active] 1341692006224 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1341692006225 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1341692006226 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1341692006227 biotin carboxylase; Validated; Region: PRK05586 1341692006228 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1341692006229 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1341692006230 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1341692006231 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 1341692006232 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 1341692006233 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 1341692006234 carboxyltransferase (CT) interaction site; other site 1341692006235 biotinylation site [posttranslational modification]; other site 1341692006236 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1341692006237 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 1341692006238 dimer interface [polypeptide binding]; other site 1341692006239 active site 1341692006240 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1341692006241 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1341692006242 NAD(P) binding site [chemical binding]; other site 1341692006243 homotetramer interface [polypeptide binding]; other site 1341692006244 homodimer interface [polypeptide binding]; other site 1341692006245 active site 1341692006246 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1341692006247 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1341692006248 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1341692006249 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 1341692006250 FMN binding site [chemical binding]; other site 1341692006251 substrate binding site [chemical binding]; other site 1341692006252 putative catalytic residue [active] 1341692006253 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1341692006254 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 1341692006255 dimer interface [polypeptide binding]; other site 1341692006256 active site 1341692006257 CoA binding pocket [chemical binding]; other site 1341692006258 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692006259 MarR family; Region: MarR; pfam01047 1341692006260 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1341692006261 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 1341692006262 FMN binding site [chemical binding]; other site 1341692006263 substrate binding site [chemical binding]; other site 1341692006264 putative catalytic residue [active] 1341692006265 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1341692006266 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1341692006267 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 1341692006268 DNA replication protein DnaC; Validated; Region: PRK06835 1341692006269 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 1341692006270 Walker A motif; other site 1341692006271 ATP binding site [chemical binding]; other site 1341692006272 Walker B motif; other site 1341692006273 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1341692006274 CoA binding domain; Region: CoA_binding_2; pfam13380 1341692006275 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1341692006276 flavoprotein, HI0933 family; Region: TIGR00275 1341692006277 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 1341692006278 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1341692006279 active site 1341692006280 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1341692006281 active site 1341692006282 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 1341692006283 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1341692006284 GDP-binding site [chemical binding]; other site 1341692006285 ACT binding site; other site 1341692006286 IMP binding site; other site 1341692006287 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1341692006288 L-aspartate oxidase; Provisional; Region: PRK06175 1341692006289 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1341692006290 Aspartase; Region: Aspartase; cd01357 1341692006291 active sites [active] 1341692006292 tetramer interface [polypeptide binding]; other site 1341692006293 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 1341692006294 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 1341692006295 G1 box; other site 1341692006296 GTP/Mg2+ binding site [chemical binding]; other site 1341692006297 Switch I region; other site 1341692006298 G2 box; other site 1341692006299 Switch II region; other site 1341692006300 G3 box; other site 1341692006301 G4 box; other site 1341692006302 G5 box; other site 1341692006303 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1341692006304 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1341692006305 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1341692006306 ApbE family; Region: ApbE; pfam02424 1341692006307 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1341692006308 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1341692006309 active site 1341692006310 metal binding site [ion binding]; metal-binding site 1341692006311 Predicted membrane protein [Function unknown]; Region: COG2246 1341692006312 GtrA-like protein; Region: GtrA; pfam04138 1341692006313 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1341692006314 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692006315 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692006316 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 1341692006317 dimerization interface [polypeptide binding]; other site 1341692006318 hypothetical protein; Provisional; Region: PRK10621 1341692006319 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1341692006320 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1341692006321 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 1341692006322 Cache domain; Region: Cache_1; pfam02743 1341692006323 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692006324 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692006325 dimer interface [polypeptide binding]; other site 1341692006326 putative CheW interface [polypeptide binding]; other site 1341692006327 agmatine deiminase; Provisional; Region: PRK13551 1341692006328 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1341692006329 Amino acid permease; Region: AA_permease_2; pfam13520 1341692006330 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1341692006331 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 1341692006332 Walker A motif; other site 1341692006333 ATP binding site [chemical binding]; other site 1341692006334 Walker B motif; other site 1341692006335 arginine finger; other site 1341692006336 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1341692006337 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1341692006338 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 1341692006339 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1341692006340 Walker A motif; other site 1341692006341 ATP binding site [chemical binding]; other site 1341692006342 Walker B motif; other site 1341692006343 arginine finger; other site 1341692006344 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 1341692006345 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; cd01292 1341692006346 active site 1341692006347 carbamate kinase; Reviewed; Region: PRK12686 1341692006348 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1341692006349 putative substrate binding site [chemical binding]; other site 1341692006350 nucleotide binding site [chemical binding]; other site 1341692006351 nucleotide binding site [chemical binding]; other site 1341692006352 homodimer interface [polypeptide binding]; other site 1341692006353 putrescine carbamoyltransferase; Provisional; Region: PRK02255 1341692006354 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1341692006355 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1341692006356 Domain of unknown function (DUF718); Region: DUF718; cl01281 1341692006357 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 1341692006358 putative substrate translocation pore; other site 1341692006359 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1341692006360 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1341692006361 intersubunit interface [polypeptide binding]; other site 1341692006362 active site 1341692006363 Zn2+ binding site [ion binding]; other site 1341692006364 L-rhamnose isomerase; Provisional; Region: PRK01076 1341692006365 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 1341692006366 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 1341692006367 N- and C-terminal domain interface [polypeptide binding]; other site 1341692006368 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 1341692006369 active site 1341692006370 putative catalytic site [active] 1341692006371 metal binding site [ion binding]; metal-binding site 1341692006372 ATP binding site [chemical binding]; other site 1341692006373 carbohydrate binding site [chemical binding]; other site 1341692006374 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1341692006375 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1341692006376 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1341692006377 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692006378 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1341692006379 dimerization interface [polypeptide binding]; other site 1341692006380 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692006381 dimer interface [polypeptide binding]; other site 1341692006382 putative CheW interface [polypeptide binding]; other site 1341692006383 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1341692006384 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1341692006385 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1341692006386 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 1341692006387 putative dimer interface [polypeptide binding]; other site 1341692006388 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1341692006389 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 1341692006390 putative dimer interface [polypeptide binding]; other site 1341692006391 replicative DNA helicase; Provisional; Region: PRK05595 1341692006392 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1341692006393 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 1341692006394 Walker A motif; other site 1341692006395 ATP binding site [chemical binding]; other site 1341692006396 Walker B motif; other site 1341692006397 DNA binding loops [nucleotide binding] 1341692006398 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 1341692006399 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 1341692006400 Walker A motif; other site 1341692006401 ATP binding site [chemical binding]; other site 1341692006402 Walker B motif; other site 1341692006403 arginine finger; other site 1341692006404 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1341692006405 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1341692006406 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1341692006407 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1341692006408 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1341692006409 DHH family; Region: DHH; pfam01368 1341692006410 MazG-like family; Region: MazG-like; pfam12643 1341692006411 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1341692006412 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1341692006413 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 1341692006414 dimer interface [polypeptide binding]; other site 1341692006415 ssDNA binding site [nucleotide binding]; other site 1341692006416 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1341692006417 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1341692006418 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 1341692006419 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1341692006420 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1341692006421 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 1341692006422 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1341692006423 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1341692006424 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 1341692006425 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1341692006426 ParB-like nuclease domain; Region: ParBc; pfam02195 1341692006427 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1341692006428 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 1341692006429 P-loop; other site 1341692006430 Magnesium ion binding site [ion binding]; other site 1341692006431 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 1341692006432 Magnesium ion binding site [ion binding]; other site 1341692006433 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 1341692006434 ParB-like nuclease domain; Region: ParBc; pfam02195 1341692006435 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1341692006436 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 1341692006437 S-adenosylmethionine binding site [chemical binding]; other site 1341692006438 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1341692006439 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1341692006440 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1341692006441 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1341692006442 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1341692006443 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1341692006444 G1 box; other site 1341692006445 GTP/Mg2+ binding site [chemical binding]; other site 1341692006446 Switch I region; other site 1341692006447 G2 box; other site 1341692006448 Switch II region; other site 1341692006449 G3 box; other site 1341692006450 G4 box; other site 1341692006451 G5 box; other site 1341692006452 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1341692006453 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1341692006454 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 1341692006455 G-X-X-G motif; other site 1341692006456 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 1341692006457 RxxxH motif; other site 1341692006458 putative inner membrane protein translocase component YidC; Provisional; Region: PRK00145 1341692006459 Haemolytic domain; Region: Haemolytic; pfam01809 1341692006460 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1341692006461 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1341692006462 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1341692006463 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1341692006464 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 1341692006465 Walker A motif; other site 1341692006466 ATP binding site [chemical binding]; other site 1341692006467 Walker B motif; other site 1341692006468 arginine finger; other site 1341692006469 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 1341692006470 DnaA box-binding interface [nucleotide binding]; other site 1341692006471 DNA polymerase III subunit beta; Validated; Region: PRK05643 1341692006472 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 1341692006473 putative DNA binding surface [nucleotide binding]; other site 1341692006474 dimer interface [polypeptide binding]; other site 1341692006475 beta-clamp/clamp loader binding surface; other site 1341692006476 beta-clamp/translesion DNA polymerase binding surface; other site 1341692006477 S4 domain; Region: S4_2; pfam13275 1341692006478 recombination protein F; Reviewed; Region: recF; PRK00064 1341692006479 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1341692006480 Walker A/P-loop; other site 1341692006481 ATP binding site [chemical binding]; other site 1341692006482 Q-loop/lid; other site 1341692006483 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692006484 ABC transporter signature motif; other site 1341692006485 Walker B; other site 1341692006486 D-loop; other site 1341692006487 H-loop/switch region; other site 1341692006488 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1341692006489 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 1341692006490 Mg2+ binding site [ion binding]; other site 1341692006491 G-X-G motif; other site 1341692006492 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 1341692006493 anchoring element; other site 1341692006494 dimer interface [polypeptide binding]; other site 1341692006495 ATP binding site [chemical binding]; other site 1341692006496 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 1341692006497 active site 1341692006498 putative metal-binding site [ion binding]; other site 1341692006499 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1341692006500 DNA gyrase subunit A; Validated; Region: PRK05560 1341692006501 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 1341692006502 CAP-like domain; other site 1341692006503 active site 1341692006504 primary dimer interface [polypeptide binding]; other site 1341692006505 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1341692006506 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1341692006507 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1341692006508 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1341692006509 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1341692006510 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1341692006511 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692006512 Zn2+ binding site [ion binding]; other site 1341692006513 Mg2+ binding site [ion binding]; other site 1341692006514 HTH domain; Region: HTH_11; pfam08279 1341692006515 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1341692006516 3H domain; Region: 3H; pfam02829 1341692006517 hypothetical protein; Validated; Region: PRK00068 1341692006518 Uncharacterized conserved protein [Function unknown]; Region: COG1615 1341692006519 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 1341692006520 seryl-tRNA synthetase; Provisional; Region: PRK05431 1341692006521 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1341692006522 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 1341692006523 dimer interface [polypeptide binding]; other site 1341692006524 active site 1341692006525 motif 1; other site 1341692006526 motif 2; other site 1341692006527 motif 3; other site 1341692006528 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1341692006529 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1341692006530 Int/Topo IB signature motif; other site 1341692006531 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1341692006532 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 1341692006533 non-specific DNA binding site [nucleotide binding]; other site 1341692006534 salt bridge; other site 1341692006535 sequence-specific DNA binding site [nucleotide binding]; other site 1341692006536 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 1341692006537 non-specific DNA binding site [nucleotide binding]; other site 1341692006538 salt bridge; other site 1341692006539 sequence-specific DNA binding site [nucleotide binding]; other site 1341692006540 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1341692006541 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 1341692006542 Helix-turn-helix of insertion element transposase; Region: HTH_Tnp_1_2; pfam13022 1341692006543 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1341692006544 DNA binding residues [nucleotide binding] 1341692006545 Terminase small subunit; Region: Terminase_2; pfam03592 1341692006546 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1341692006547 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1341692006548 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 1341692006549 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1341692006550 catalytic residue [active] 1341692006551 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 1341692006552 non-specific DNA binding site [nucleotide binding]; other site 1341692006553 salt bridge; other site 1341692006554 sequence-specific DNA binding site [nucleotide binding]; other site 1341692006555 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1341692006556 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1341692006557 Virulence protein [General function prediction only]; Region: COG3943 1341692006558 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1341692006559 Coat F domain; Region: Coat_F; pfam07875 1341692006560 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1341692006561 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692006562 MarR family; Region: MarR_2; pfam12802 1341692006563 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692006564 Coenzyme A binding pocket [chemical binding]; other site 1341692006565 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1341692006566 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1341692006567 Bacterial transcriptional regulator; Region: IclR; pfam01614 1341692006568 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1341692006569 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1341692006570 inhibitor site; inhibition site 1341692006571 active site 1341692006572 dimer interface [polypeptide binding]; other site 1341692006573 catalytic residue [active] 1341692006574 putative dehydratase; Provisional; Region: PRK08211 1341692006575 Dehydratase family; Region: ILVD_EDD; cl00340 1341692006576 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1341692006577 gluconate transporter; Region: gntP; TIGR00791 1341692006578 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1341692006579 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692006580 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1341692006581 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692006582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1341692006583 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 1341692006584 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1341692006585 active site 1341692006586 motif I; other site 1341692006587 motif II; other site 1341692006588 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1341692006589 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 1341692006590 intersubunit interface [polypeptide binding]; other site 1341692006591 active site 1341692006592 zinc binding site [ion binding]; other site 1341692006593 Na+ binding site [ion binding]; other site 1341692006594 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1341692006595 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 1341692006596 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1341692006597 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1341692006598 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1341692006599 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1341692006600 putative active site [active] 1341692006601 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 1341692006602 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1341692006603 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1341692006604 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1341692006605 ABC1 family; Region: ABC1; cl17513 1341692006606 Uncharacterized conserved protein [Function unknown]; Region: COG3937 1341692006607 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 1341692006608 nucleoside/Zn binding site; other site 1341692006609 dimer interface [polypeptide binding]; other site 1341692006610 catalytic motif [active] 1341692006611 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692006612 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1341692006613 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 1341692006614 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692006615 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1341692006616 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692006617 Walker A/P-loop; other site 1341692006618 ATP binding site [chemical binding]; other site 1341692006619 Q-loop/lid; other site 1341692006620 ABC transporter signature motif; other site 1341692006621 Walker B; other site 1341692006622 D-loop; other site 1341692006623 H-loop/switch region; other site 1341692006624 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692006625 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 1341692006626 dimer interface [polypeptide binding]; other site 1341692006627 phosphorylation site [posttranslational modification] 1341692006628 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 1341692006629 ATP binding site [chemical binding]; other site 1341692006630 Mg2+ binding site [ion binding]; other site 1341692006631 G-X-G motif; other site 1341692006632 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692006633 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 1341692006634 active site 1341692006635 phosphorylation site [posttranslational modification] 1341692006636 intermolecular recognition site; other site 1341692006637 dimerization interface [polypeptide binding]; other site 1341692006638 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 1341692006639 DNA binding site [nucleotide binding] 1341692006640 Helix-turn-helix domain; Region: HTH_17; pfam12728 1341692006641 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1341692006642 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 1341692006643 Walker A motif; other site 1341692006644 ATP binding site [chemical binding]; other site 1341692006645 Walker B motif; other site 1341692006646 arginine finger; other site 1341692006647 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1341692006648 hypothetical protein; Validated; Region: PRK00153 1341692006649 recombination protein RecR; Reviewed; Region: recR; PRK00076 1341692006650 RecR protein; Region: RecR; pfam02132 1341692006651 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 1341692006652 putative active site [active] 1341692006653 putative metal-binding site [ion binding]; other site 1341692006654 tetramer interface [polypeptide binding]; other site 1341692006655 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 1341692006656 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1341692006657 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1341692006658 putative NADH binding site [chemical binding]; other site 1341692006659 putative active site [active] 1341692006660 nudix motif; other site 1341692006661 putative metal binding site [ion binding]; other site 1341692006662 Class I aldolases; Region: Aldolase_Class_I; cl17187 1341692006663 catalytic residue [active] 1341692006664 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1341692006665 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 1341692006666 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1341692006667 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1341692006668 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1341692006669 catalytic residue [active] 1341692006670 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1341692006671 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 1341692006672 putative ligand binding site [chemical binding]; other site 1341692006673 NAD binding site [chemical binding]; other site 1341692006674 dimerization interface [polypeptide binding]; other site 1341692006675 catalytic site [active] 1341692006676 Uncharacterized conserved protein [Function unknown]; Region: COG4198 1341692006677 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 1341692006678 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692006679 Zn2+ binding site [ion binding]; other site 1341692006680 Mg2+ binding site [ion binding]; other site 1341692006681 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692006682 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 1341692006683 active site 1341692006684 phosphorylation site [posttranslational modification] 1341692006685 intermolecular recognition site; other site 1341692006686 dimerization interface [polypeptide binding]; other site 1341692006687 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 1341692006688 DNA binding site [nucleotide binding] 1341692006689 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692006690 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 1341692006691 dimer interface [polypeptide binding]; other site 1341692006692 phosphorylation site [posttranslational modification] 1341692006693 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 1341692006694 ATP binding site [chemical binding]; other site 1341692006695 Mg2+ binding site [ion binding]; other site 1341692006696 G-X-G motif; other site 1341692006697 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692006698 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1341692006699 Walker A/P-loop; other site 1341692006700 ATP binding site [chemical binding]; other site 1341692006701 Q-loop/lid; other site 1341692006702 ABC transporter signature motif; other site 1341692006703 Walker B; other site 1341692006704 D-loop; other site 1341692006705 H-loop/switch region; other site 1341692006706 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1341692006707 FtsX-like permease family; Region: FtsX; pfam02687 1341692006708 FtsX-like permease family; Region: FtsX; pfam02687 1341692006709 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1341692006710 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1341692006711 oligomer interface [polypeptide binding]; other site 1341692006712 active site 1341692006713 metal binding site [ion binding]; metal-binding site 1341692006714 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1341692006715 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1341692006716 oligomer interface [polypeptide binding]; other site 1341692006717 active site 1341692006718 metal binding site [ion binding]; metal-binding site 1341692006719 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1341692006720 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1341692006721 oligomer interface [polypeptide binding]; other site 1341692006722 active site 1341692006723 metal binding site [ion binding]; metal-binding site 1341692006724 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1341692006725 active site 1341692006726 Fe-S cluster binding site [ion binding]; other site 1341692006727 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1341692006728 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1341692006729 catalytic residue [active] 1341692006730 SurA N-terminal domain; Region: SurA_N_3; cl07813 1341692006731 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1341692006732 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1341692006733 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1341692006734 active site 1341692006735 catalytic residues [active] 1341692006736 L-arabinose isomerase; Provisional; Region: PRK02929 1341692006737 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1341692006738 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1341692006739 trimer interface [polypeptide binding]; other site 1341692006740 substrate binding site [chemical binding]; other site 1341692006741 Mn binding site [ion binding]; other site 1341692006742 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1341692006743 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1341692006744 intersubunit interface [polypeptide binding]; other site 1341692006745 active site 1341692006746 Zn2+ binding site [ion binding]; other site 1341692006747 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 1341692006748 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1341692006749 putative N- and C-terminal domain interface [polypeptide binding]; other site 1341692006750 putative active site [active] 1341692006751 MgATP binding site [chemical binding]; other site 1341692006752 catalytic site [active] 1341692006753 metal binding site [ion binding]; metal-binding site 1341692006754 putative carbohydrate binding site [chemical binding]; other site 1341692006755 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1341692006756 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692006757 DNA-binding site [nucleotide binding]; DNA binding site 1341692006758 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1341692006759 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1341692006760 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1341692006761 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1341692006762 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1341692006763 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 1341692006764 MFS/sugar transport protein; Region: MFS_2; pfam13347 1341692006765 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 1341692006766 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 1341692006767 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1341692006768 ligand binding site [chemical binding]; other site 1341692006769 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1341692006770 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1341692006771 Walker A/P-loop; other site 1341692006772 ATP binding site [chemical binding]; other site 1341692006773 Q-loop/lid; other site 1341692006774 ABC transporter signature motif; other site 1341692006775 Walker B; other site 1341692006776 D-loop; other site 1341692006777 H-loop/switch region; other site 1341692006778 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1341692006779 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1341692006780 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1341692006781 TM-ABC transporter signature motif; other site 1341692006782 NAD-dependent deacetylase; Provisional; Region: PRK00481 1341692006783 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1341692006784 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1341692006785 dimer interface [polypeptide binding]; other site 1341692006786 catalytic triad [active] 1341692006787 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1341692006788 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1341692006789 Cl binding site [ion binding]; other site 1341692006790 oligomer interface [polypeptide binding]; other site 1341692006791 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 1341692006792 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1341692006793 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1341692006794 homodimer interface [polypeptide binding]; other site 1341692006795 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692006796 catalytic residue [active] 1341692006797 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1341692006798 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1341692006799 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 1341692006800 TMP-binding site; other site 1341692006801 ATP-binding site [chemical binding]; other site 1341692006802 Protein of unknown function (DUF970); Region: DUF970; pfam06153 1341692006803 DNA polymerase III subunit delta'; Validated; Region: PRK05564 1341692006804 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 1341692006805 Walker A motif; other site 1341692006806 ATP binding site [chemical binding]; other site 1341692006807 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1341692006808 Walker B motif; other site 1341692006809 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1341692006810 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 1341692006811 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 1341692006812 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1341692006813 4Fe-4S binding domain; Region: Fer4; cl02805 1341692006814 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1341692006815 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1341692006816 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1341692006817 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1341692006818 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1341692006819 ligand binding site [chemical binding]; other site 1341692006820 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1341692006821 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 1341692006822 S-adenosylmethionine binding site [chemical binding]; other site 1341692006823 Predicted methyltransferases [General function prediction only]; Region: COG0313 1341692006824 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1341692006825 putative SAM binding site [chemical binding]; other site 1341692006826 putative homodimer interface [polypeptide binding]; other site 1341692006827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1341692006828 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1341692006829 NlpC/P60 family; Region: NLPC_P60; pfam00877 1341692006830 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1341692006831 NlpC/P60 family; Region: NLPC_P60; pfam00877 1341692006832 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1341692006833 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1341692006834 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1341692006835 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1341692006836 active site 1341692006837 NTP binding site [chemical binding]; other site 1341692006838 metal binding triad [ion binding]; metal-binding site 1341692006839 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1341692006840 CRISPR-associated endonuclease Cas3-HD; Region: cas3_HD; TIGR01596 1341692006841 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1341692006842 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1341692006843 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 1341692006844 homotrimer interaction site [polypeptide binding]; other site 1341692006845 zinc binding site [ion binding]; other site 1341692006846 CDP-binding sites; other site 1341692006847 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1341692006848 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1341692006849 NodB motif; other site 1341692006850 active site 1341692006851 catalytic site [active] 1341692006852 Zn binding site [ion binding]; other site 1341692006853 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1341692006854 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 1341692006855 putative active site [active] 1341692006856 putative metal binding site [ion binding]; other site 1341692006857 Bacterial Ig-like domain; Region: Big_5; pfam13205 1341692006858 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 1341692006859 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1341692006860 HTH-like domain; Region: HTH_21; pfam13276 1341692006861 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1341692006862 Integrase core domain; Region: rve; pfam00665 1341692006863 Integrase core domain; Region: rve_2; pfam13333 1341692006864 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1341692006865 Helix-turn-helix domain; Region: HTH_28; pfam13518 1341692006866 Helix-turn-helix domain; Region: HTH_28; pfam13518 1341692006867 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1341692006868 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1341692006869 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1341692006870 Fe-S cluster binding site [ion binding]; other site 1341692006871 active site 1341692006872 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1341692006873 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1341692006874 HIGH motif; other site 1341692006875 active site 1341692006876 KMSKS motif; other site 1341692006877 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1341692006878 anticodon binding site; other site 1341692006879 tRNA binding surface [nucleotide binding]; other site 1341692006880 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1341692006881 putative tRNA-binding site [nucleotide binding]; other site 1341692006882 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1341692006883 active site 1341692006884 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1341692006885 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1341692006886 G5 domain; Region: G5; pfam07501 1341692006887 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 1341692006888 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1341692006889 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 1341692006890 putative active site [active] 1341692006891 putative metal binding site [ion binding]; other site 1341692006892 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1341692006893 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1341692006894 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 1341692006895 S-adenosylmethionine binding site [chemical binding]; other site 1341692006896 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1341692006897 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 1341692006898 Walker A motif; other site 1341692006899 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 1341692006900 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 1341692006901 ATP cone domain; Region: ATP-cone; pfam03477 1341692006902 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1341692006903 effector binding site; other site 1341692006904 active site 1341692006905 Zn binding site [ion binding]; other site 1341692006906 glycine loop; other site 1341692006907 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 1341692006908 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 1341692006909 FeS/SAM binding site; other site 1341692006910 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 1341692006911 dimerization interface [polypeptide binding]; other site 1341692006912 putative DNA binding site [nucleotide binding]; other site 1341692006913 putative Zn2+ binding site [ion binding]; other site 1341692006914 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1341692006915 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 1341692006916 Bacterial Ig-like domain; Region: Big_5; pfam13205 1341692006917 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1341692006918 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 1341692006919 active site 1341692006920 metal binding site [ion binding]; metal-binding site 1341692006921 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1341692006922 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1341692006923 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 1341692006924 active site 1341692006925 metal binding site [ion binding]; metal-binding site 1341692006926 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 1341692006927 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1341692006928 HIGH motif; other site 1341692006929 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1341692006930 active site 1341692006931 KMSKS motif; other site 1341692006932 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1341692006933 tRNA binding surface [nucleotide binding]; other site 1341692006934 anticodon binding site; other site 1341692006935 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1341692006936 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1341692006937 DNA binding site [nucleotide binding] 1341692006938 domain linker motif; other site 1341692006939 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1341692006940 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1341692006941 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1341692006942 Part of AAA domain; Region: AAA_19; pfam13245 1341692006943 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1341692006944 AAA domain; Region: AAA_12; pfam13087 1341692006945 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1341692006946 putative active site [active] 1341692006947 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 1341692006948 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1341692006949 Substrate binding site; other site 1341692006950 Cupin domain; Region: Cupin_2; cl17218 1341692006951 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1341692006952 GIY-YIG motif/motif A; other site 1341692006953 putative active site [active] 1341692006954 putative metal binding site [ion binding]; other site 1341692006955 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1341692006956 active site 1341692006957 DNA binding site [nucleotide binding] 1341692006958 Protein of unknown function DUF111; Region: DUF111; pfam01969 1341692006959 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1341692006960 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 1341692006961 FeS/SAM binding site; other site 1341692006962 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1341692006963 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1341692006964 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692006965 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1341692006966 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 1341692006967 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1341692006968 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 1341692006969 substrate binding site [chemical binding]; other site 1341692006970 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1341692006971 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1341692006972 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1341692006973 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 1341692006974 substrate binding site [chemical binding]; other site 1341692006975 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1341692006976 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692006977 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1341692006978 spore coat protein YutH; Region: spore_yutH; TIGR02905 1341692006979 YabG peptidase U57; Region: Peptidase_U57; pfam05582 1341692006980 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 1341692006981 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 1341692006982 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 1341692006983 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 1341692006984 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1341692006985 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1341692006986 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1341692006987 proposed catalytic triad [active] 1341692006988 active site nucleophile [active] 1341692006989 cyanophycin synthetase; Provisional; Region: PRK14016 1341692006990 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1341692006991 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1341692006992 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1341692006993 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1341692006994 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1341692006995 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1341692006996 Spore germination protein; Region: Spore_permease; cl17796 1341692006997 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1341692006998 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1341692006999 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1341692007000 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 1341692007001 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 1341692007002 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 1341692007003 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 1341692007004 germination protein YpeB; Region: spore_YpeB; TIGR02889 1341692007005 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 1341692007006 CTP synthetase; Validated; Region: pyrG; PRK05380 1341692007007 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 1341692007008 Catalytic site [active] 1341692007009 active site 1341692007010 UTP binding site [chemical binding]; other site 1341692007011 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1341692007012 active site 1341692007013 putative oxyanion hole; other site 1341692007014 catalytic triad [active] 1341692007015 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1341692007016 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1341692007017 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 1341692007018 RNA binding site [nucleotide binding]; other site 1341692007019 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 1341692007020 multimer interface [polypeptide binding]; other site 1341692007021 Walker A motif; other site 1341692007022 ATP binding site [chemical binding]; other site 1341692007023 Walker B motif; other site 1341692007024 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1341692007025 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 1341692007026 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1341692007027 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 1341692007028 S-adenosylmethionine binding site [chemical binding]; other site 1341692007029 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1341692007030 Protein of unknown function (DUF964); Region: DUF964; cl01483 1341692007031 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1341692007032 RF-1 domain; Region: RF-1; pfam00472 1341692007033 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1341692007034 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1341692007035 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1341692007036 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1341692007037 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1341692007038 active site 1341692007039 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1341692007040 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1341692007041 active site 1341692007042 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 1341692007043 catalytic motif [active] 1341692007044 Zn binding site [ion binding]; other site 1341692007045 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1341692007046 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 1341692007047 Mg++ binding site [ion binding]; other site 1341692007048 putative catalytic motif [active] 1341692007049 substrate binding site [chemical binding]; other site 1341692007050 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1341692007051 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 1341692007052 active site 1341692007053 homodimer interface [polypeptide binding]; other site 1341692007054 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1341692007055 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 1341692007056 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 1341692007057 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1341692007058 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1341692007059 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1341692007060 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1341692007061 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1341692007062 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 1341692007063 beta subunit interaction interface [polypeptide binding]; other site 1341692007064 Walker A motif; other site 1341692007065 ATP binding site [chemical binding]; other site 1341692007066 Walker B motif; other site 1341692007067 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1341692007068 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1341692007069 core domain interface [polypeptide binding]; other site 1341692007070 delta subunit interface [polypeptide binding]; other site 1341692007071 epsilon subunit interface [polypeptide binding]; other site 1341692007072 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1341692007073 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1341692007074 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 1341692007075 alpha subunit interaction interface [polypeptide binding]; other site 1341692007076 Walker A motif; other site 1341692007077 ATP binding site [chemical binding]; other site 1341692007078 Walker B motif; other site 1341692007079 inhibitor binding site; inhibition site 1341692007080 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1341692007081 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13450 1341692007082 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1341692007083 gamma subunit interface [polypeptide binding]; other site 1341692007084 epsilon subunit interface [polypeptide binding]; other site 1341692007085 LBP interface [polypeptide binding]; other site 1341692007086 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1341692007087 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 1341692007088 hinge; other site 1341692007089 active site 1341692007090 stage II sporulation protein D; Region: spore_II_D; TIGR02870 1341692007091 Stage II sporulation protein; Region: SpoIID; pfam08486 1341692007092 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1341692007093 Peptidase family M23; Region: Peptidase_M23; pfam01551 1341692007094 Stage III sporulation protein D; Region: SpoIIID; pfam12116 1341692007095 rod shape-determining protein Mbl; Provisional; Region: PRK13928 1341692007096 MreB and similar proteins; Region: MreB_like; cd10225 1341692007097 nucleotide binding site [chemical binding]; other site 1341692007098 Mg binding site [ion binding]; other site 1341692007099 putative protofilament interaction site [polypeptide binding]; other site 1341692007100 RodZ interaction site [polypeptide binding]; other site 1341692007101 Protein of unknown function (DUF1256); Region: DUF1256; pfam06866 1341692007102 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1341692007103 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1341692007104 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1341692007105 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1341692007106 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1341692007107 AAA domain; Region: AAA_30; pfam13604 1341692007108 Family description; Region: UvrD_C_2; pfam13538 1341692007109 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1341692007110 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1341692007111 active site 1341692007112 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 1341692007113 30S subunit binding site; other site 1341692007114 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1341692007115 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 1341692007116 ATP binding site [chemical binding]; other site 1341692007117 putative Mg++ binding site [ion binding]; other site 1341692007118 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1341692007119 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 1341692007120 nucleotide binding region [chemical binding]; other site 1341692007121 ATP-binding site [chemical binding]; other site 1341692007122 SEC-C motif; Region: SEC-C; pfam02810 1341692007123 peptide chain release factor 2; Provisional; Region: PRK05589 1341692007124 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1341692007125 RF-1 domain; Region: RF-1; pfam00472 1341692007126 H+ Antiporter protein; Region: 2A0121; TIGR00900 1341692007127 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 1341692007128 putative substrate translocation pore; other site 1341692007129 glutamate dehydrogenase; Provisional; Region: PRK09414 1341692007130 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1341692007131 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1341692007132 NAD(P) binding site [chemical binding]; other site 1341692007133 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1341692007134 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 1341692007135 Peptidase family M28; Region: Peptidase_M28; pfam04389 1341692007136 metal binding site [ion binding]; metal-binding site 1341692007137 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1341692007138 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1341692007139 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1341692007140 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1341692007141 RNA binding site [nucleotide binding]; other site 1341692007142 Predicted membrane protein [Function unknown]; Region: COG3601 1341692007143 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1341692007144 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1341692007145 Predicted phosphohydrolase [General function prediction only]; Region: COG1768 1341692007146 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1341692007147 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 1341692007148 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 1341692007149 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1341692007150 synthetase active site [active] 1341692007151 NTP binding site [chemical binding]; other site 1341692007152 metal binding site [ion binding]; metal-binding site 1341692007153 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1341692007154 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1341692007155 HIGH motif; other site 1341692007156 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1341692007157 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1341692007158 active site 1341692007159 KMSKS motif; other site 1341692007160 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1341692007161 tRNA binding surface [nucleotide binding]; other site 1341692007162 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 1341692007163 HSP70 interaction site [polypeptide binding]; other site 1341692007164 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 1341692007165 putative active site [active] 1341692007166 putative triphosphate binding site [ion binding]; other site 1341692007167 dimer interface [polypeptide binding]; other site 1341692007168 putative metal binding residues [ion binding]; other site 1341692007169 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 1341692007170 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1341692007171 intersubunit interface [polypeptide binding]; other site 1341692007172 active site 1341692007173 zinc binding site [ion binding]; other site 1341692007174 Na+ binding site [ion binding]; other site 1341692007175 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 1341692007176 Predicted membrane protein [Function unknown]; Region: COG2323 1341692007177 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1341692007178 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 1341692007179 active site 1341692007180 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1341692007181 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1341692007182 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1341692007183 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 1341692007184 AIR carboxylase; Region: AIRC; smart01001 1341692007185 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 1341692007186 benzoate transporter; Region: benE; TIGR00843 1341692007187 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 1341692007188 active site 1341692007189 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cd00758 1341692007190 MPT binding site; other site 1341692007191 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1341692007192 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1341692007193 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1341692007194 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1341692007195 Protein of unknown function DUF111; Region: DUF111; cl03398 1341692007196 hypothetical protein; Provisional; Region: PRK04194 1341692007197 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1341692007198 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1341692007199 Bacterial transcriptional regulator; Region: IclR; pfam01614 1341692007200 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 1341692007201 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 1341692007202 Ligand Binding Site [chemical binding]; other site 1341692007203 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1341692007204 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1341692007205 inhibitor site; inhibition site 1341692007206 active site 1341692007207 dimer interface [polypeptide binding]; other site 1341692007208 catalytic residue [active] 1341692007209 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1341692007210 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692007211 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692007212 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692007213 dimer interface [polypeptide binding]; other site 1341692007214 putative CheW interface [polypeptide binding]; other site 1341692007215 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 1341692007216 anti sigma factor interaction site; other site 1341692007217 regulatory phosphorylation site [posttranslational modification]; other site 1341692007218 Cache domain; Region: Cache_1; pfam02743 1341692007219 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1341692007220 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 1341692007221 dimerization interface [polypeptide binding]; other site 1341692007222 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692007223 dimer interface [polypeptide binding]; other site 1341692007224 putative CheW interface [polypeptide binding]; other site 1341692007225 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1341692007226 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1341692007227 ATP binding site [chemical binding]; other site 1341692007228 Mg2+ binding site [ion binding]; other site 1341692007229 G-X-G motif; other site 1341692007230 PAS domain; Region: PAS; smart00091 1341692007231 PAS domain; Region: PAS_9; pfam13426 1341692007232 PAS domain S-box; Region: sensory_box; TIGR00229 1341692007233 PAS domain; Region: PAS; smart00091 1341692007234 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1341692007235 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1341692007236 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 1341692007237 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1341692007238 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1341692007239 FOG: CBS domain [General function prediction only]; Region: COG0517 1341692007240 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 1341692007241 putative lipid kinase; Reviewed; Region: PRK13059 1341692007242 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1341692007243 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1341692007244 hypothetical protein; Provisional; Region: PRK00955 1341692007245 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1341692007246 MgtE intracellular N domain; Region: MgtE_N; smart00924 1341692007247 FOG: CBS domain [General function prediction only]; Region: COG0517 1341692007248 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 1341692007249 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 1341692007250 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1341692007251 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1341692007252 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1341692007253 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1341692007254 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 1341692007255 putative substrate binding site [chemical binding]; other site 1341692007256 putative ATP binding site [chemical binding]; other site 1341692007257 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1341692007258 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 1341692007259 PemK-like protein; Region: PemK; pfam02452 1341692007260 transketolase; Reviewed; Region: PRK05899 1341692007261 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 1341692007262 TPP-binding site [chemical binding]; other site 1341692007263 dimer interface [polypeptide binding]; other site 1341692007264 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1341692007265 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 1341692007266 PYR/PP interface [polypeptide binding]; other site 1341692007267 dimer interface [polypeptide binding]; other site 1341692007268 TPP binding site [chemical binding]; other site 1341692007269 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1341692007270 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1341692007271 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692007272 Walker A/P-loop; other site 1341692007273 ATP binding site [chemical binding]; other site 1341692007274 Q-loop/lid; other site 1341692007275 ABC transporter signature motif; other site 1341692007276 Walker B; other site 1341692007277 D-loop; other site 1341692007278 H-loop/switch region; other site 1341692007279 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1341692007280 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1341692007281 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1341692007282 C-terminal peptidase (prc); Region: prc; TIGR00225 1341692007283 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 1341692007284 protein binding site [polypeptide binding]; other site 1341692007285 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1341692007286 Catalytic dyad [active] 1341692007287 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1341692007288 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 1341692007289 excinuclease ABC subunit B; Provisional; Region: PRK05298 1341692007290 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 1341692007291 ATP binding site [chemical binding]; other site 1341692007292 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 1341692007293 putative Mg++ binding site [ion binding]; other site 1341692007294 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 1341692007295 nucleotide binding region [chemical binding]; other site 1341692007296 ATP-binding site [chemical binding]; other site 1341692007297 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1341692007298 UvrB/uvrC motif; Region: UVR; pfam02151 1341692007299 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1341692007300 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1341692007301 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1341692007302 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1341692007303 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1341692007304 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1341692007305 phosphopeptide binding site; other site 1341692007306 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1341692007307 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1341692007308 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1341692007309 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1341692007310 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1341692007311 GIY-YIG motif/motif A; other site 1341692007312 active site 1341692007313 catalytic site [active] 1341692007314 putative DNA binding site [nucleotide binding]; other site 1341692007315 metal binding site [ion binding]; metal-binding site 1341692007316 UvrB/uvrC motif; Region: UVR; pfam02151 1341692007317 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1341692007318 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1341692007319 FAD binding domain; Region: FAD_binding_4; pfam01565 1341692007320 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1341692007321 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1341692007322 AAA domain; Region: AAA_18; pfam13238 1341692007323 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1341692007324 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1341692007325 phosphate binding site [ion binding]; other site 1341692007326 putative substrate binding pocket [chemical binding]; other site 1341692007327 dimer interface [polypeptide binding]; other site 1341692007328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1341692007329 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1341692007330 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1341692007331 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692007332 DNA-binding site [nucleotide binding]; DNA binding site 1341692007333 DRTGG domain; Region: DRTGG; pfam07085 1341692007334 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 1341692007335 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 1341692007336 active site 2 [active] 1341692007337 active site 1 [active] 1341692007338 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 1341692007339 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1341692007340 active site 1341692007341 PHP Thumb interface [polypeptide binding]; other site 1341692007342 metal binding site [ion binding]; metal-binding site 1341692007343 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 1341692007344 generic binding surface II; other site 1341692007345 generic binding surface I; other site 1341692007346 6-phosphofructokinase; Provisional; Region: PRK03202 1341692007347 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1341692007348 active site 1341692007349 ADP/pyrophosphate binding site [chemical binding]; other site 1341692007350 dimerization interface [polypeptide binding]; other site 1341692007351 allosteric effector site; other site 1341692007352 fructose-1,6-bisphosphate binding site; other site 1341692007353 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 1341692007354 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 1341692007355 active site 1341692007356 domain interfaces; other site 1341692007357 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 1341692007358 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1341692007359 TRAM domain; Region: TRAM; cl01282 1341692007360 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 1341692007361 S-adenosylmethionine binding site [chemical binding]; other site 1341692007362 Propionate catabolism activator; Region: PrpR_N; pfam06506 1341692007363 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1341692007364 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 1341692007365 Walker A motif; other site 1341692007366 ATP binding site [chemical binding]; other site 1341692007367 Walker B motif; other site 1341692007368 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1341692007369 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1341692007370 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1341692007371 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1341692007372 putative active site [active] 1341692007373 metal binding site [ion binding]; metal-binding site 1341692007374 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1341692007375 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1341692007376 inhibitor site; inhibition site 1341692007377 active site 1341692007378 dimer interface [polypeptide binding]; other site 1341692007379 catalytic residue [active] 1341692007380 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1341692007381 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1341692007382 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1341692007383 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 1341692007384 putative ligand binding site [chemical binding]; other site 1341692007385 putative NAD binding site [chemical binding]; other site 1341692007386 catalytic site [active] 1341692007387 D-galactonate transporter; Region: 2A0114; TIGR00893 1341692007388 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 1341692007389 putative substrate translocation pore; other site 1341692007390 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; cl17904 1341692007391 Uncharacterized protein family (UPF0180); Region: UPF0180; pfam03698 1341692007392 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1341692007393 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1341692007394 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1341692007395 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692007396 dimer interface [polypeptide binding]; other site 1341692007397 putative CheW interface [polypeptide binding]; other site 1341692007398 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 1341692007399 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1341692007400 EamA-like transporter family; Region: EamA; pfam00892 1341692007401 EamA-like transporter family; Region: EamA; pfam00892 1341692007402 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1341692007403 HAMP domain; Region: HAMP; pfam00672 1341692007404 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692007405 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692007406 dimer interface [polypeptide binding]; other site 1341692007407 putative CheW interface [polypeptide binding]; other site 1341692007408 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1341692007409 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1341692007410 Ligand binding site; other site 1341692007411 Putative Catalytic site; other site 1341692007412 DXD motif; other site 1341692007413 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 1341692007414 Firmicu-CTERM domain; Region: Firmicu_CTERM; TIGR04145 1341692007415 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 1341692007416 putative glycosyltransferase, exosortase G-associated; Region: glyc2_xrt_Gpos1; TIGR03111 1341692007417 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1341692007418 DXD motif; other site 1341692007419 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692007420 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692007421 metal binding site [ion binding]; metal-binding site 1341692007422 active site 1341692007423 I-site; other site 1341692007424 6-pyruvoyl tetrahydropterin synthase-related domain; Region: 6_pyr_pter_rel; TIGR03112 1341692007425 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1341692007426 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1341692007427 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1341692007428 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1341692007429 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1341692007430 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1341692007431 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1341692007432 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1341692007433 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1341692007434 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1341692007435 HlyD family secretion protein; Region: HlyD_3; pfam13437 1341692007436 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1341692007437 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1341692007438 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1341692007439 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 1341692007440 ATP binding site [chemical binding]; other site 1341692007441 Mg++ binding site [ion binding]; other site 1341692007442 motif III; other site 1341692007443 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 1341692007444 nucleotide binding region [chemical binding]; other site 1341692007445 ATP-binding site [chemical binding]; other site 1341692007446 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 1341692007447 RNA binding site [nucleotide binding]; other site 1341692007448 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1341692007449 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692007450 Zn2+ binding site [ion binding]; other site 1341692007451 Mg2+ binding site [ion binding]; other site 1341692007452 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1341692007453 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1341692007454 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1341692007455 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1341692007456 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1341692007457 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1341692007458 putative DNA binding site [nucleotide binding]; other site 1341692007459 putative Zn2+ binding site [ion binding]; other site 1341692007460 AsnC family; Region: AsnC_trans_reg; pfam01037 1341692007461 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1341692007462 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1341692007463 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1341692007464 putative NAD(P) binding site [chemical binding]; other site 1341692007465 aspartate ammonia-lyase; Provisional; Region: PRK13353 1341692007466 Aspartase; Region: Aspartase; cd01357 1341692007467 active sites [active] 1341692007468 tetramer interface [polypeptide binding]; other site 1341692007469 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 1341692007470 citrate lyase subunit gamma; Provisional; Region: PRK13253 1341692007471 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1341692007472 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 1341692007473 Coenzyme A transferase; Region: CoA_trans; cl17247 1341692007474 Coenzyme A transferase; Region: CoA_trans; cl17247 1341692007475 sensory histidine kinase DcuS; Provisional; Region: PRK11086 1341692007476 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 1341692007477 ATP binding site [chemical binding]; other site 1341692007478 Mg2+ binding site [ion binding]; other site 1341692007479 G-X-G motif; other site 1341692007480 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1341692007481 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 1341692007482 active site 1341692007483 phosphorylation site [posttranslational modification] 1341692007484 intermolecular recognition site; other site 1341692007485 dimerization interface [polypeptide binding]; other site 1341692007486 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1341692007487 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1341692007488 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692007489 putative CheW interface [polypeptide binding]; other site 1341692007490 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1341692007491 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692007492 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 1341692007493 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1341692007494 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 1341692007495 active site 1341692007496 motif I; other site 1341692007497 motif II; other site 1341692007498 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1341692007499 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1341692007500 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1341692007501 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1341692007502 dimer interface [polypeptide binding]; other site 1341692007503 active site 1341692007504 catalytic residue [active] 1341692007505 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1341692007506 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1341692007507 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1341692007508 SpoVR like protein; Region: SpoVR; pfam04293 1341692007509 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1341692007510 metal ion-dependent adhesion site (MIDAS); other site 1341692007511 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 1341692007512 AAA ATPase domain; Region: AAA_16; pfam13191 1341692007513 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1341692007514 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1341692007515 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 1341692007516 putative Zn2+ binding site [ion binding]; other site 1341692007517 putative DNA binding site [nucleotide binding]; other site 1341692007518 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1341692007519 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 1341692007520 putative substrate translocation pore; other site 1341692007521 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 1341692007522 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1341692007523 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1341692007524 HlyD family secretion protein; Region: HlyD_3; pfam13437 1341692007525 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1341692007526 HlyD family secretion protein; Region: HlyD_3; pfam13437 1341692007527 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1341692007528 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1341692007529 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1341692007530 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1341692007531 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1341692007532 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1341692007533 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1341692007534 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1341692007535 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1341692007536 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1341692007537 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 1341692007538 IMP binding site; other site 1341692007539 dimer interface [polypeptide binding]; other site 1341692007540 interdomain contacts; other site 1341692007541 partial ornithine binding site; other site 1341692007542 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1341692007543 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1341692007544 metal binding site [ion binding]; metal-binding site 1341692007545 dimer interface [polypeptide binding]; other site 1341692007546 Propionate catabolism activator; Region: PrpR_N; pfam06506 1341692007547 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1341692007548 PAS domain; Region: PAS; smart00091 1341692007549 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 1341692007550 Walker A motif; other site 1341692007551 ATP binding site [chemical binding]; other site 1341692007552 Walker B motif; other site 1341692007553 arginine finger; other site 1341692007554 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1341692007555 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1341692007556 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1341692007557 tetramer interface [polypeptide binding]; other site 1341692007558 active site 1341692007559 Mg2+/Mn2+ binding site [ion binding]; other site 1341692007560 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 1341692007561 D-galactonate transporter; Region: 2A0114; TIGR00893 1341692007562 putative substrate translocation pore; other site 1341692007563 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 1341692007564 dimer interface [polypeptide binding]; other site 1341692007565 phosphorylation site [posttranslational modification] 1341692007566 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 1341692007567 ATP binding site [chemical binding]; other site 1341692007568 Mg2+ binding site [ion binding]; other site 1341692007569 G-X-G motif; other site 1341692007570 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692007571 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 1341692007572 active site 1341692007573 phosphorylation site [posttranslational modification] 1341692007574 intermolecular recognition site; other site 1341692007575 dimerization interface [polypeptide binding]; other site 1341692007576 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 1341692007577 DNA binding site [nucleotide binding] 1341692007578 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1341692007579 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1341692007580 Ligand binding site; other site 1341692007581 Putative Catalytic site; other site 1341692007582 DXD motif; other site 1341692007583 Predicted membrane protein [Function unknown]; Region: COG2246 1341692007584 GtrA-like protein; Region: GtrA; pfam04138 1341692007585 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1341692007586 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1341692007587 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1341692007588 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1341692007589 tRNA; other site 1341692007590 putative tRNA binding site [nucleotide binding]; other site 1341692007591 putative NADP binding site [chemical binding]; other site 1341692007592 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1341692007593 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1341692007594 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 1341692007595 inhibitor-cofactor binding pocket; inhibition site 1341692007596 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692007597 catalytic residue [active] 1341692007598 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 1341692007599 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1341692007600 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1341692007601 active site 1341692007602 tetramer interface; other site 1341692007603 Predicted integral membrane protein [Function unknown]; Region: COG5542 1341692007604 TGF-beta propeptide; Region: TGFb_propeptide; pfam00688 1341692007605 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1341692007606 putative metal binding site; other site 1341692007607 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 1341692007608 binding surface 1341692007609 TPR motif; other site 1341692007610 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 1341692007611 TPR motif; other site 1341692007612 binding surface 1341692007613 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692007614 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 1341692007615 dimer interface [polypeptide binding]; other site 1341692007616 phosphorylation site [posttranslational modification] 1341692007617 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 1341692007618 ATP binding site [chemical binding]; other site 1341692007619 Mg2+ binding site [ion binding]; other site 1341692007620 G-X-G motif; other site 1341692007621 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692007622 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 1341692007623 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1341692007624 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692007625 Walker A/P-loop; other site 1341692007626 ATP binding site [chemical binding]; other site 1341692007627 Q-loop/lid; other site 1341692007628 ABC transporter signature motif; other site 1341692007629 Walker B; other site 1341692007630 D-loop; other site 1341692007631 H-loop/switch region; other site 1341692007632 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692007633 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 1341692007634 active site 1341692007635 phosphorylation site [posttranslational modification] 1341692007636 intermolecular recognition site; other site 1341692007637 dimerization interface [polypeptide binding]; other site 1341692007638 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 1341692007639 DNA binding site [nucleotide binding] 1341692007640 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1341692007641 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1341692007642 Walker A/P-loop; other site 1341692007643 ATP binding site [chemical binding]; other site 1341692007644 Q-loop/lid; other site 1341692007645 ABC transporter signature motif; other site 1341692007646 Walker B; other site 1341692007647 D-loop; other site 1341692007648 H-loop/switch region; other site 1341692007649 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 1341692007650 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 1341692007651 dimer interface [polypeptide binding]; other site 1341692007652 conserved gate region; other site 1341692007653 ABC-ATPase subunit interface; other site 1341692007654 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 1341692007655 Predicted transcriptional regulators [Transcription]; Region: COG1725 1341692007656 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692007657 DNA-binding site [nucleotide binding]; DNA binding site 1341692007658 Predicted membrane protein [General function prediction only]; Region: COG4194 1341692007659 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 1341692007660 aspartate aminotransferase; Provisional; Region: PRK06836 1341692007661 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 1341692007662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692007663 homodimer interface [polypeptide binding]; other site 1341692007664 catalytic residue [active] 1341692007665 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1341692007666 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1341692007667 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1341692007668 Protein of unknown function DUF116; Region: DUF116; pfam01976 1341692007669 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 1341692007670 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1341692007671 putative substrate translocation pore; other site 1341692007672 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 1341692007673 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692007674 MarR family; Region: MarR_2; cl17246 1341692007675 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 1341692007676 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1341692007677 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 1341692007678 H+ Antiporter protein; Region: 2A0121; TIGR00900 1341692007679 putative substrate translocation pore; other site 1341692007680 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1341692007681 active site 1341692007682 ATP binding site [chemical binding]; other site 1341692007683 amino acid transporter; Region: 2A0306; TIGR00909 1341692007684 Spore germination protein; Region: Spore_permease; cl17796 1341692007685 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1341692007686 amino acid transporter; Region: 2A0306; TIGR00909 1341692007687 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1341692007688 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1341692007689 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 1341692007690 dimerization interface [polypeptide binding]; other site 1341692007691 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692007692 dimer interface [polypeptide binding]; other site 1341692007693 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1341692007694 putative CheW interface [polypeptide binding]; other site 1341692007695 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692007696 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 1341692007697 dimer interface [polypeptide binding]; other site 1341692007698 phosphorylation site [posttranslational modification] 1341692007699 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 1341692007700 ATP binding site [chemical binding]; other site 1341692007701 Mg2+ binding site [ion binding]; other site 1341692007702 G-X-G motif; other site 1341692007703 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 1341692007704 Ligand Binding Site [chemical binding]; other site 1341692007705 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1341692007706 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007707 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007708 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007709 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 1341692007710 toxin interface [polypeptide binding]; other site 1341692007711 Zn binding site [ion binding]; other site 1341692007712 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007713 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007714 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007715 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007716 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007717 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007718 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 1341692007719 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1341692007720 Walker A/P-loop; other site 1341692007721 ATP binding site [chemical binding]; other site 1341692007722 Q-loop/lid; other site 1341692007723 ABC transporter signature motif; other site 1341692007724 Walker B; other site 1341692007725 D-loop; other site 1341692007726 H-loop/switch region; other site 1341692007727 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1341692007728 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1341692007729 Haemagglutinin; Region: Hemagglutinin; pfam00509 1341692007730 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1341692007731 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1341692007732 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1341692007733 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 1341692007734 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1341692007735 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1341692007736 active site 1341692007737 metal binding site [ion binding]; metal-binding site 1341692007738 homotetramer interface [polypeptide binding]; other site 1341692007739 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 1341692007740 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1341692007741 Peptidase M16C associated; Region: M16C_assoc; pfam08367 1341692007742 Helix-turn-helix domain; Region: HTH_17; pfam12728 1341692007743 PBP superfamily domain; Region: PBP_like; pfam12727 1341692007744 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 1341692007745 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 1341692007746 Nucleotide-binding sites [chemical binding]; other site 1341692007747 Walker A motif; other site 1341692007748 Switch I region of nucleotide binding site; other site 1341692007749 Fe4S4 binding sites [ion binding]; other site 1341692007750 Switch II region of nucleotide binding site; other site 1341692007751 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 1341692007752 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1341692007753 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1341692007754 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1341692007755 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 1341692007756 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 1341692007757 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 1341692007758 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1341692007759 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 1341692007760 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 1341692007761 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 1341692007762 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1341692007763 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 1341692007764 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 1341692007765 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 1341692007766 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 1341692007767 active site 1341692007768 catalytic residues [active] 1341692007769 metal binding site [ion binding]; metal-binding site 1341692007770 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007771 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007772 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007773 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007774 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007775 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007776 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692007777 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 1341692007778 active site 1341692007779 phosphorylation site [posttranslational modification] 1341692007780 intermolecular recognition site; other site 1341692007781 dimerization interface [polypeptide binding]; other site 1341692007782 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 1341692007783 DNA binding site [nucleotide binding] 1341692007784 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692007785 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 1341692007786 dimerization interface [polypeptide binding]; other site 1341692007787 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 1341692007788 dimer interface [polypeptide binding]; other site 1341692007789 phosphorylation site [posttranslational modification] 1341692007790 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 1341692007791 ATP binding site [chemical binding]; other site 1341692007792 Mg2+ binding site [ion binding]; other site 1341692007793 G-X-G motif; other site 1341692007794 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692007795 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1341692007796 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692007797 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1341692007798 Walker A/P-loop; other site 1341692007799 ATP binding site [chemical binding]; other site 1341692007800 Q-loop/lid; other site 1341692007801 ABC transporter signature motif; other site 1341692007802 Walker B; other site 1341692007803 D-loop; other site 1341692007804 H-loop/switch region; other site 1341692007805 Outer membrane efflux protein; Region: OEP; pfam02321 1341692007806 Outer membrane efflux protein; Region: OEP; pfam02321 1341692007807 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1341692007808 Bacterial Ig-like domain; Region: Big_5; pfam13205 1341692007809 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007810 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007811 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007812 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007813 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007814 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007815 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1341692007816 Chain length determinant protein; Region: Wzz; cl15801 1341692007817 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1341692007818 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1341692007819 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 1341692007820 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 1341692007821 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 1341692007822 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1341692007823 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692007824 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1341692007825 DNA binding residues [nucleotide binding] 1341692007826 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1341692007827 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1341692007828 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692007829 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 1341692007830 putative ADP-binding pocket [chemical binding]; other site 1341692007831 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 1341692007832 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 1341692007833 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692007834 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1341692007835 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1341692007836 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1341692007837 Probable Catalytic site; other site 1341692007838 metal-binding site 1341692007839 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1341692007840 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 1341692007841 active site 1341692007842 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 1341692007843 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 1341692007844 putative trimer interface [polypeptide binding]; other site 1341692007845 putative active site [active] 1341692007846 putative substrate binding site [chemical binding]; other site 1341692007847 putative CoA binding site [chemical binding]; other site 1341692007848 WxcM-like, C-terminal; Region: FdtA; pfam05523 1341692007849 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 1341692007850 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1341692007851 inhibitor-cofactor binding pocket; inhibition site 1341692007852 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692007853 catalytic residue [active] 1341692007854 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1341692007855 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1341692007856 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1341692007857 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 1341692007858 active site 1341692007859 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692007860 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 1341692007861 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692007862 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 1341692007863 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1341692007864 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1341692007865 Substrate binding site; other site 1341692007866 Cupin domain; Region: Cupin_2; cl17218 1341692007867 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1341692007868 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1341692007869 NAD binding site [chemical binding]; other site 1341692007870 substrate binding site [chemical binding]; other site 1341692007871 homodimer interface [polypeptide binding]; other site 1341692007872 active site 1341692007873 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1341692007874 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1341692007875 substrate binding site; other site 1341692007876 tetramer interface; other site 1341692007877 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1341692007878 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1341692007879 NADP binding site [chemical binding]; other site 1341692007880 active site 1341692007881 putative substrate binding site [chemical binding]; other site 1341692007882 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1341692007883 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1341692007884 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1341692007885 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692007886 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 1341692007887 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692007888 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1341692007889 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 1341692007890 putative trimer interface [polypeptide binding]; other site 1341692007891 putative CoA binding site [chemical binding]; other site 1341692007892 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 1341692007893 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 1341692007894 Ligand Binding Site [chemical binding]; other site 1341692007895 Molecular Tunnel; other site 1341692007896 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1341692007897 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1341692007898 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1341692007899 NAD(P) binding site [chemical binding]; other site 1341692007900 homodimer interface [polypeptide binding]; other site 1341692007901 substrate binding site [chemical binding]; other site 1341692007902 active site 1341692007903 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1341692007904 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 1341692007905 inhibitor-cofactor binding pocket; inhibition site 1341692007906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692007907 catalytic residue [active] 1341692007908 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 1341692007909 ligand binding site; other site 1341692007910 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1341692007911 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1341692007912 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1341692007913 pseudaminic acid synthase; Region: PseI; TIGR03586 1341692007914 NeuB family; Region: NeuB; pfam03102 1341692007915 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1341692007916 NeuB binding interface [polypeptide binding]; other site 1341692007917 putative substrate binding site [chemical binding]; other site 1341692007918 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 1341692007919 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 1341692007920 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1341692007921 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1341692007922 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 1341692007923 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 1341692007924 active site 1341692007925 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 1341692007926 Cupin domain; Region: Cupin_2; cl17218 1341692007927 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1341692007928 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1341692007929 NAD binding site [chemical binding]; other site 1341692007930 substrate binding site [chemical binding]; other site 1341692007931 homodimer interface [polypeptide binding]; other site 1341692007932 active site 1341692007933 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1341692007934 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1341692007935 substrate binding site; other site 1341692007936 tetramer interface; other site 1341692007937 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1341692007938 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1341692007939 NADP binding site [chemical binding]; other site 1341692007940 active site 1341692007941 putative substrate binding site [chemical binding]; other site 1341692007942 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1341692007943 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692007944 metal binding site [ion binding]; metal-binding site 1341692007945 active site 1341692007946 I-site; other site 1341692007947 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 1341692007948 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 1341692007949 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1341692007950 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1341692007951 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1341692007952 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 1341692007953 Walker A motif; other site 1341692007954 ATP binding site [chemical binding]; other site 1341692007955 Walker B motif; other site 1341692007956 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1341692007957 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1341692007958 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1341692007959 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 1341692007960 Integral membrane protein DUF106; Region: DUF106; pfam01956 1341692007961 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1341692007962 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1341692007963 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1341692007964 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1341692007965 PilX N-terminal; Region: PilX_N; pfam14341 1341692007966 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 1341692007967 MgtC family; Region: MgtC; pfam02308 1341692007968 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007969 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 1341692007970 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007971 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692007972 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1341692007973 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1341692007974 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1341692007975 FtsX-like permease family; Region: FtsX; pfam02687 1341692007976 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692007977 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1341692007978 Walker A/P-loop; other site 1341692007979 ATP binding site [chemical binding]; other site 1341692007980 Q-loop/lid; other site 1341692007981 ABC transporter signature motif; other site 1341692007982 Walker B; other site 1341692007983 D-loop; other site 1341692007984 H-loop/switch region; other site 1341692007985 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1341692007986 metal ion-dependent adhesion site (MIDAS); other site 1341692007987 Tubulin like; Region: Tubulin_2; pfam13809 1341692007988 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1341692007989 metal ion-dependent adhesion site (MIDAS); other site 1341692007990 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1341692007991 nudix motif; other site 1341692007992 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1341692007993 catalytic triad [active] 1341692007994 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1341692007995 Double zinc ribbon; Region: DZR; pfam12773 1341692007996 YARHG domain; Region: YARHG; pfam13308 1341692007997 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1341692007998 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 1341692007999 putative binding site residues; other site 1341692008000 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1341692008001 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 1341692008002 ABC-ATPase subunit interface; other site 1341692008003 dimer interface [polypeptide binding]; other site 1341692008004 putative PBP binding regions; other site 1341692008005 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1341692008006 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1341692008007 Walker A/P-loop; other site 1341692008008 ATP binding site [chemical binding]; other site 1341692008009 Q-loop/lid; other site 1341692008010 ABC transporter signature motif; other site 1341692008011 Walker B; other site 1341692008012 D-loop; other site 1341692008013 H-loop/switch region; other site 1341692008014 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 1341692008015 Domain of unknown function DUF; Region: DUF204; pfam02659 1341692008016 Bacterial Ig-like domain; Region: Big_5; pfam13205 1341692008017 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1341692008018 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 1341692008019 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1341692008020 active site 1341692008021 Ion channel; Region: Ion_trans_2; pfam07885 1341692008022 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 1341692008023 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1341692008024 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692008025 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692008026 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692008027 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1341692008028 FAD binding domain; Region: FAD_binding_4; pfam01565 1341692008029 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1341692008030 Predicted integral membrane protein [Function unknown]; Region: COG5652 1341692008031 Macro domain, Af1521- and BAL-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 ADP-ribose...; Region: Macro_Af1521_BAL_like; cd02907 1341692008032 ADP-ribose binding site [chemical binding]; other site 1341692008033 HlyD family secretion protein; Region: HlyD_3; pfam13437 1341692008034 HlyD family secretion protein; Region: HlyD_3; pfam13437 1341692008035 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1341692008036 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1341692008037 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 1341692008038 Catalytic site [active] 1341692008039 gamma-glutamyl kinase; Provisional; Region: PRK05429 1341692008040 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 1341692008041 nucleotide binding site [chemical binding]; other site 1341692008042 homotetrameric interface [polypeptide binding]; other site 1341692008043 putative phosphate binding site [ion binding]; other site 1341692008044 putative allosteric binding site; other site 1341692008045 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1341692008046 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1341692008047 putative catalytic cysteine [active] 1341692008048 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 1341692008049 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 1341692008050 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1341692008051 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1341692008052 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1341692008053 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1341692008054 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692008055 dimer interface [polypeptide binding]; other site 1341692008056 putative CheW interface [polypeptide binding]; other site 1341692008057 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1341692008058 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1341692008059 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 1341692008060 protein binding site [polypeptide binding]; other site 1341692008061 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1341692008062 Catalytic dyad [active] 1341692008063 Bacterial Ig-like domain; Region: Big_5; pfam13205 1341692008064 Protein of unknown function DUF45; Region: DUF45; pfam01863 1341692008065 Predicted membrane protein [Function unknown]; Region: COG1971 1341692008066 Domain of unknown function DUF; Region: DUF204; pfam02659 1341692008067 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1341692008068 metal binding site 2 [ion binding]; metal-binding site 1341692008069 putative DNA binding helix; other site 1341692008070 metal binding site 1 [ion binding]; metal-binding site 1341692008071 dimer interface [polypeptide binding]; other site 1341692008072 structural Zn2+ binding site [ion binding]; other site 1341692008073 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1341692008074 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692008075 Zn2+ binding site [ion binding]; other site 1341692008076 Mg2+ binding site [ion binding]; other site 1341692008077 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1341692008078 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1341692008079 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 1341692008080 Walker A motif; other site 1341692008081 ATP binding site [chemical binding]; other site 1341692008082 Walker B motif; other site 1341692008083 arginine finger; other site 1341692008084 Peptidase family M41; Region: Peptidase_M41; pfam01434 1341692008085 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 1341692008086 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 1341692008087 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 1341692008088 RNA/DNA hybrid binding site [nucleotide binding]; other site 1341692008089 active site 1341692008090 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1341692008091 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 1341692008092 non-specific DNA binding site [nucleotide binding]; other site 1341692008093 salt bridge; other site 1341692008094 sequence-specific DNA binding site [nucleotide binding]; other site 1341692008095 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1341692008096 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1341692008097 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 1341692008098 non-specific DNA binding site [nucleotide binding]; other site 1341692008099 salt bridge; other site 1341692008100 sequence-specific DNA binding site [nucleotide binding]; other site 1341692008101 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1341692008102 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1341692008103 Clp amino terminal domain; Region: Clp_N; pfam02861 1341692008104 Clp amino terminal domain; Region: Clp_N; pfam02861 1341692008105 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 1341692008106 Walker A motif; other site 1341692008107 ATP binding site [chemical binding]; other site 1341692008108 Walker B motif; other site 1341692008109 arginine finger; other site 1341692008110 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 1341692008111 Walker A motif; other site 1341692008112 ATP binding site [chemical binding]; other site 1341692008113 Walker B motif; other site 1341692008114 arginine finger; other site 1341692008115 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1341692008116 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1341692008117 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1341692008118 NodB motif; other site 1341692008119 active site 1341692008120 catalytic site [active] 1341692008121 Zn binding site [ion binding]; other site 1341692008122 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1341692008123 catalytic triad [active] 1341692008124 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1341692008125 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1341692008126 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1341692008127 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 1341692008128 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1341692008129 active site 1341692008130 substrate-binding site [chemical binding]; other site 1341692008131 metal-binding site [ion binding] 1341692008132 ATP binding site [chemical binding]; other site 1341692008133 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1341692008134 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1341692008135 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 1341692008136 metal binding site [ion binding]; metal-binding site 1341692008137 dimer interface [polypeptide binding]; other site 1341692008138 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1341692008139 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1341692008140 Walker A/P-loop; other site 1341692008141 ATP binding site [chemical binding]; other site 1341692008142 Q-loop/lid; other site 1341692008143 ABC transporter signature motif; other site 1341692008144 Walker B; other site 1341692008145 D-loop; other site 1341692008146 H-loop/switch region; other site 1341692008147 NIL domain; Region: NIL; pfam09383 1341692008148 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 1341692008149 dimer interface [polypeptide binding]; other site 1341692008150 conserved gate region; other site 1341692008151 ABC-ATPase subunit interface; other site 1341692008152 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1341692008153 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1341692008154 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1341692008155 EamA-like transporter family; Region: EamA; pfam00892 1341692008156 EamA-like transporter family; Region: EamA; pfam00892 1341692008157 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 1341692008158 dihydropteroate synthase; Region: DHPS; TIGR01496 1341692008159 substrate binding pocket [chemical binding]; other site 1341692008160 dimer interface [polypeptide binding]; other site 1341692008161 inhibitor binding site; inhibition site 1341692008162 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 1341692008163 homodecamer interface [polypeptide binding]; other site 1341692008164 GTP cyclohydrolase I; Provisional; Region: PLN03044 1341692008165 active site 1341692008166 putative catalytic site residues [active] 1341692008167 zinc binding site [ion binding]; other site 1341692008168 GTP-CH-I/GFRP interaction surface; other site 1341692008169 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1341692008170 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 1341692008171 homooctamer interface [polypeptide binding]; other site 1341692008172 active site 1341692008173 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 1341692008174 catalytic center binding site [active] 1341692008175 ATP binding site [chemical binding]; other site 1341692008176 MoxR-like ATPases [General function prediction only]; Region: COG0714 1341692008177 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 1341692008178 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1341692008179 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692008180 Coenzyme A binding pocket [chemical binding]; other site 1341692008181 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 1341692008182 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 1341692008183 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 1341692008184 metal ion-dependent adhesion site (MIDAS); other site 1341692008185 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 1341692008186 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1341692008187 Active site serine [active] 1341692008188 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1341692008189 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692008190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 1341692008191 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692008192 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1341692008193 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 1341692008194 Walker A/P-loop; other site 1341692008195 ATP binding site [chemical binding]; other site 1341692008196 Q-loop/lid; other site 1341692008197 ABC transporter signature motif; other site 1341692008198 Walker B; other site 1341692008199 D-loop; other site 1341692008200 H-loop/switch region; other site 1341692008201 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692008202 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 1341692008203 dimer interface [polypeptide binding]; other site 1341692008204 phosphorylation site [posttranslational modification] 1341692008205 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 1341692008206 ATP binding site [chemical binding]; other site 1341692008207 G-X-G motif; other site 1341692008208 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692008209 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 1341692008210 active site 1341692008211 phosphorylation site [posttranslational modification] 1341692008212 intermolecular recognition site; other site 1341692008213 dimerization interface [polypeptide binding]; other site 1341692008214 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 1341692008215 DNA binding site [nucleotide binding] 1341692008216 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1341692008217 EamA-like transporter family; Region: EamA; pfam00892 1341692008218 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1341692008219 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1341692008220 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1341692008221 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1341692008222 putative acyl-acceptor binding pocket; other site 1341692008223 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1341692008224 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 1341692008225 active site 1341692008226 catalytic residues [active] 1341692008227 metal binding site [ion binding]; metal-binding site 1341692008228 aconitate hydratase; Validated; Region: PRK07229 1341692008229 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 1341692008230 substrate binding site [chemical binding]; other site 1341692008231 ligand binding site [chemical binding]; other site 1341692008232 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1341692008233 substrate binding site [chemical binding]; other site 1341692008234 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1341692008235 isocitrate dehydrogenase; Validated; Region: PRK06451 1341692008236 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 1341692008237 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1341692008238 homodimer interface [polypeptide binding]; other site 1341692008239 substrate-cofactor binding pocket; other site 1341692008240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692008241 catalytic residue [active] 1341692008242 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1341692008243 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1341692008244 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 1341692008245 substrate binding pocket [chemical binding]; other site 1341692008246 dimer interface [polypeptide binding]; other site 1341692008247 inhibitor binding site; inhibition site 1341692008248 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 1341692008249 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 1341692008250 B12 binding site [chemical binding]; other site 1341692008251 cobalt ligand [ion binding]; other site 1341692008252 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 1341692008253 phosphate binding site [ion binding]; other site 1341692008254 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1341692008255 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 1341692008256 substrate binding pocket [chemical binding]; other site 1341692008257 membrane-bound complex binding site; other site 1341692008258 hinge residues; other site 1341692008259 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1341692008260 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 1341692008261 dimer interface [polypeptide binding]; other site 1341692008262 conserved gate region; other site 1341692008263 putative PBP binding loops; other site 1341692008264 ABC-ATPase subunit interface; other site 1341692008265 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1341692008266 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1341692008267 Walker A/P-loop; other site 1341692008268 ATP binding site [chemical binding]; other site 1341692008269 Q-loop/lid; other site 1341692008270 ABC transporter signature motif; other site 1341692008271 Walker B; other site 1341692008272 D-loop; other site 1341692008273 H-loop/switch region; other site 1341692008274 Arginosuccinate synthase; Region: Arginosuc_synth; cl17227 1341692008275 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 1341692008276 Substrate Binding Site II [chemical binding]; other site 1341692008277 ANP binding site [chemical binding]; other site 1341692008278 Substrate Binding Site I [chemical binding]; other site 1341692008279 argininosuccinate lyase; Provisional; Region: PRK00855 1341692008280 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1341692008281 active sites [active] 1341692008282 tetramer interface [polypeptide binding]; other site 1341692008283 Uncharacterized conserved protein [Function unknown]; Region: COG2155 1341692008284 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1341692008285 AsnC family; Region: AsnC_trans_reg; pfam01037 1341692008286 asparagine synthetase A; Reviewed; Region: PRK06462 1341692008287 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 1341692008288 motif 1; other site 1341692008289 dimer interface [polypeptide binding]; other site 1341692008290 active site 1341692008291 motif 2; other site 1341692008292 motif 3; other site 1341692008293 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1341692008294 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692008295 DNA-binding site [nucleotide binding]; DNA binding site 1341692008296 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1341692008297 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1341692008298 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1341692008299 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1341692008300 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1341692008301 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 1341692008302 RNA polymerase factor sigma-70; Validated; Region: PRK06811 1341692008303 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692008304 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1341692008305 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1341692008306 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692008307 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 1341692008308 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 1341692008309 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 1341692008310 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1341692008311 active site 1341692008312 dimer interface [polypeptide binding]; other site 1341692008313 effector binding site; other site 1341692008314 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1341692008315 TSCPD domain; Region: TSCPD; pfam12637 1341692008316 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1341692008317 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1341692008318 trimer interface [polypeptide binding]; other site 1341692008319 putative metal binding site [ion binding]; other site 1341692008320 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1341692008321 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1341692008322 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1341692008323 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 1341692008324 putative active site [active] 1341692008325 Zn binding site [ion binding]; other site 1341692008326 Protein of unknown function (DUF327); Region: DUF327; pfam03885 1341692008327 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1341692008328 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1341692008329 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1341692008330 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1341692008331 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1341692008332 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1341692008333 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1341692008334 S1 domain; Region: S1_2; pfam13509 1341692008335 S1 domain; Region: S1_2; pfam13509 1341692008336 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1341692008337 Protein involved in polysaccharide intercellular adhesin (PIA) synthesis/biofilm formation [Carbohydrate transport and metabolism]; Region: COG3936 1341692008338 NAD synthetase; Reviewed; Region: nadE; PRK02628 1341692008339 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1341692008340 multimer interface [polypeptide binding]; other site 1341692008341 active site 1341692008342 catalytic triad [active] 1341692008343 protein interface 1 [polypeptide binding]; other site 1341692008344 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 1341692008345 homodimer interface [polypeptide binding]; other site 1341692008346 NAD binding pocket [chemical binding]; other site 1341692008347 ATP binding pocket [chemical binding]; other site 1341692008348 Mg binding site [ion binding]; other site 1341692008349 active-site loop [active] 1341692008350 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1341692008351 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 1341692008352 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1341692008353 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692008354 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 1341692008355 active site 1341692008356 phosphorylation site [posttranslational modification] 1341692008357 intermolecular recognition site; other site 1341692008358 dimerization interface [polypeptide binding]; other site 1341692008359 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 1341692008360 DNA binding site [nucleotide binding] 1341692008361 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692008362 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 1341692008363 dimerization interface [polypeptide binding]; other site 1341692008364 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 1341692008365 dimer interface [polypeptide binding]; other site 1341692008366 phosphorylation site [posttranslational modification] 1341692008367 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 1341692008368 ATP binding site [chemical binding]; other site 1341692008369 Mg2+ binding site [ion binding]; other site 1341692008370 G-X-G motif; other site 1341692008371 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 1341692008372 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 1341692008373 molybdopterin cofactor binding site; other site 1341692008374 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_CT_Formate-Dh_H; cd02790 1341692008375 molybdopterin cofactor binding site; other site 1341692008376 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1341692008377 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 1341692008378 putative dimer interface [polypeptide binding]; other site 1341692008379 [2Fe-2S] cluster binding site [ion binding]; other site 1341692008380 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 1341692008381 dimer interface [polypeptide binding]; other site 1341692008382 [2Fe-2S] cluster binding site [ion binding]; other site 1341692008383 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1341692008384 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1341692008385 SLBB domain; Region: SLBB; pfam10531 1341692008386 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1341692008387 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1341692008388 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 1341692008389 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1341692008390 4Fe-4S binding domain; Region: Fer4; pfam00037 1341692008391 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1341692008392 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1341692008393 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1341692008394 4Fe-4S binding domain; Region: Fer4; cl02805 1341692008395 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 1341692008396 Hexamer/Pentamer interface [polypeptide binding]; other site 1341692008397 central pore; other site 1341692008398 Sensory domain found in PocR; Region: PocR; pfam10114 1341692008399 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1341692008400 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692008401 dimer interface [polypeptide binding]; other site 1341692008402 putative CheW interface [polypeptide binding]; other site 1341692008403 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1341692008404 hypothetical protein; Provisional; Region: PRK04435 1341692008405 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1341692008406 homoserine dehydrogenase; Provisional; Region: PRK06349 1341692008407 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1341692008408 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1341692008409 homoserine kinase; Provisional; Region: PRK01212 1341692008410 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1341692008411 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1341692008412 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1341692008413 Maf-like protein; Reviewed; Region: PRK00078 1341692008414 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 1341692008415 active site 1341692008416 dimer interface [polypeptide binding]; other site 1341692008417 hypothetical protein; Reviewed; Region: PRK00024 1341692008418 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1341692008419 helix-hairpin-helix signature motif; other site 1341692008420 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1341692008421 MPN+ (JAMM) motif; other site 1341692008422 Zinc-binding site [ion binding]; other site 1341692008423 rod shape-determining protein MreB; Provisional; Region: PRK13927 1341692008424 MreB and similar proteins; Region: MreB_like; cd10225 1341692008425 nucleotide binding site [chemical binding]; other site 1341692008426 Mg binding site [ion binding]; other site 1341692008427 putative protofilament interaction site [polypeptide binding]; other site 1341692008428 RodZ interaction site [polypeptide binding]; other site 1341692008429 rod shape-determining protein MreC; Provisional; Region: PRK13922 1341692008430 rod shape-determining protein MreC; Region: MreC; pfam04085 1341692008431 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 1341692008432 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1341692008433 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1341692008434 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1341692008435 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1341692008436 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1341692008437 septum formation inhibitor; Reviewed; Region: minC; PRK00513 1341692008438 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1341692008439 septum site-determining protein MinD; Region: minD_bact; TIGR01968 1341692008440 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 1341692008441 Switch I; other site 1341692008442 Switch II; other site 1341692008443 Septum formation topological specificity factor MinE; Region: MinE; cl00538 1341692008444 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1341692008445 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1341692008446 active site 1341692008447 dimer interfaces [polypeptide binding]; other site 1341692008448 catalytic residues [active] 1341692008449 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 1341692008450 Peptidase family M50; Region: Peptidase_M50; pfam02163 1341692008451 active site 1341692008452 putative substrate binding region [chemical binding]; other site 1341692008453 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 1341692008454 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 1341692008455 FeS/SAM binding site; other site 1341692008456 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 1341692008457 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 1341692008458 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1341692008459 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 1341692008460 homodimer interface [polypeptide binding]; other site 1341692008461 oligonucleotide binding site [chemical binding]; other site 1341692008462 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1341692008463 hypothetical protein; Provisional; Region: PRK14553 1341692008464 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1341692008465 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1341692008466 GTP1/OBG; Region: GTP1_OBG; pfam01018 1341692008467 Obg GTPase; Region: Obg; cd01898 1341692008468 G1 box; other site 1341692008469 GTP/Mg2+ binding site [chemical binding]; other site 1341692008470 Switch I region; other site 1341692008471 G2 box; other site 1341692008472 G3 box; other site 1341692008473 Switch II region; other site 1341692008474 G4 box; other site 1341692008475 G5 box; other site 1341692008476 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1341692008477 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1341692008478 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1341692008479 active site 1341692008480 (T/H)XGH motif; other site 1341692008481 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692008482 Zn2+ binding site [ion binding]; other site 1341692008483 Mg2+ binding site [ion binding]; other site 1341692008484 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1341692008485 homotrimer interaction site [polypeptide binding]; other site 1341692008486 putative active site [active] 1341692008487 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1341692008488 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1341692008489 active site 1341692008490 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1341692008491 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1341692008492 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1341692008493 SLBB domain; Region: SLBB; pfam10531 1341692008494 Helix-hairpin-helix motif; Region: HHH; pfam00633 1341692008495 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 1341692008496 dimerization interface [polypeptide binding]; other site 1341692008497 putative ATP binding site [chemical binding]; other site 1341692008498 selenocysteine synthase; Provisional; Region: PRK04311 1341692008499 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1341692008500 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1341692008501 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 1341692008502 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1341692008503 G1 box; other site 1341692008504 putative GEF interaction site [polypeptide binding]; other site 1341692008505 GTP/Mg2+ binding site [chemical binding]; other site 1341692008506 Switch I region; other site 1341692008507 G2 box; other site 1341692008508 G3 box; other site 1341692008509 Switch II region; other site 1341692008510 G4 box; other site 1341692008511 G5 box; other site 1341692008512 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 1341692008513 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 1341692008514 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1341692008515 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1341692008516 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 1341692008517 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1341692008518 substrate binding pocket [chemical binding]; other site 1341692008519 dimer interface [polypeptide binding]; other site 1341692008520 inhibitor binding site; inhibition site 1341692008521 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1341692008522 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 1341692008523 B12 binding site [chemical binding]; other site 1341692008524 cobalt ligand [ion binding]; other site 1341692008525 CmuC_like. Proteins similar to the putative corrinoid methyltransferase CmuC. Its function has been inferred from sequence similarity to the methyltransferases CmuA and MtaA. Mutants of Methylobacterium sp. disrupted in cmuC and purU appear deficient in...; Region: CmuC_like; cd03309 1341692008526 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1341692008527 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1341692008528 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 1341692008529 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1341692008530 substrate binding pocket [chemical binding]; other site 1341692008531 dimer interface [polypeptide binding]; other site 1341692008532 inhibitor binding site; inhibition site 1341692008533 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1341692008534 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 1341692008535 B12 binding site [chemical binding]; other site 1341692008536 cobalt ligand [ion binding]; other site 1341692008537 CmuC_like. Proteins similar to the putative corrinoid methyltransferase CmuC. Its function has been inferred from sequence similarity to the methyltransferases CmuA and MtaA. Mutants of Methylobacterium sp. disrupted in cmuC and purU appear deficient in...; Region: CmuC_like; cd03309 1341692008538 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1341692008539 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1341692008540 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1341692008541 HlyD family secretion protein; Region: HlyD_3; pfam13437 1341692008542 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1341692008543 Protein export membrane protein; Region: SecD_SecF; cl14618 1341692008544 OsmC-like protein; Region: OsmC; pfam02566 1341692008545 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1341692008546 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1341692008547 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1341692008548 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1341692008549 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1341692008550 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692008551 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1341692008552 Walker A/P-loop; other site 1341692008553 ATP binding site [chemical binding]; other site 1341692008554 Q-loop/lid; other site 1341692008555 ABC transporter signature motif; other site 1341692008556 Walker B; other site 1341692008557 D-loop; other site 1341692008558 H-loop/switch region; other site 1341692008559 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1341692008560 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1341692008561 FtsX-like permease family; Region: FtsX; pfam02687 1341692008562 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1341692008563 FtsX-like permease family; Region: FtsX; pfam02687 1341692008564 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 1341692008565 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692008566 active site 1341692008567 phosphorylation site [posttranslational modification] 1341692008568 intermolecular recognition site; other site 1341692008569 dimerization interface [polypeptide binding]; other site 1341692008570 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 1341692008571 DNA binding site [nucleotide binding] 1341692008572 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692008573 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 1341692008574 dimer interface [polypeptide binding]; other site 1341692008575 phosphorylation site [posttranslational modification] 1341692008576 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 1341692008577 ATP binding site [chemical binding]; other site 1341692008578 Mg2+ binding site [ion binding]; other site 1341692008579 G-X-G motif; other site 1341692008580 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1341692008581 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 1341692008582 ligand binding site [chemical binding]; other site 1341692008583 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1341692008584 putative switch regulator; other site 1341692008585 non-specific DNA interactions [nucleotide binding]; other site 1341692008586 DNA binding site [nucleotide binding] 1341692008587 sequence specific DNA binding site [nucleotide binding]; other site 1341692008588 putative cAMP binding site [chemical binding]; other site 1341692008589 hybrid cluster protein; Provisional; Region: PRK05290 1341692008590 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 1341692008591 CODH interaction site; other site 1341692008592 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 1341692008593 ACS interaction site; other site 1341692008594 CODH interaction site; other site 1341692008595 metal cluster binding site [ion binding]; other site 1341692008596 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692008597 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 1341692008598 active site 1341692008599 phosphorylation site [posttranslational modification] 1341692008600 intermolecular recognition site; other site 1341692008601 dimerization interface [polypeptide binding]; other site 1341692008602 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 1341692008603 DNA binding site [nucleotide binding] 1341692008604 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1341692008605 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692008606 Walker A/P-loop; other site 1341692008607 ATP binding site [chemical binding]; other site 1341692008608 Q-loop/lid; other site 1341692008609 ABC transporter signature motif; other site 1341692008610 Walker B; other site 1341692008611 D-loop; other site 1341692008612 H-loop/switch region; other site 1341692008613 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1341692008614 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692008615 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692008616 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1341692008617 Walker A/P-loop; other site 1341692008618 ATP binding site [chemical binding]; other site 1341692008619 Q-loop/lid; other site 1341692008620 ABC transporter signature motif; other site 1341692008621 Walker B; other site 1341692008622 D-loop; other site 1341692008623 H-loop/switch region; other site 1341692008624 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1341692008625 FtsX-like permease family; Region: FtsX; pfam02687 1341692008626 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1341692008627 FtsX-like permease family; Region: FtsX; pfam02687 1341692008628 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692008629 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 1341692008630 dimer interface [polypeptide binding]; other site 1341692008631 phosphorylation site [posttranslational modification] 1341692008632 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 1341692008633 ATP binding site [chemical binding]; other site 1341692008634 Mg2+ binding site [ion binding]; other site 1341692008635 G-X-G motif; other site 1341692008636 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692008637 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 1341692008638 active site 1341692008639 phosphorylation site [posttranslational modification] 1341692008640 intermolecular recognition site; other site 1341692008641 dimerization interface [polypeptide binding]; other site 1341692008642 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 1341692008643 DNA binding site [nucleotide binding] 1341692008644 hypothetical protein; Provisional; Region: PRK06771 1341692008645 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692008646 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 1341692008647 dimerization interface [polypeptide binding]; other site 1341692008648 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 1341692008649 dimer interface [polypeptide binding]; other site 1341692008650 phosphorylation site [posttranslational modification] 1341692008651 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 1341692008652 ATP binding site [chemical binding]; other site 1341692008653 Mg2+ binding site [ion binding]; other site 1341692008654 G-X-G motif; other site 1341692008655 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1341692008656 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 1341692008657 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1341692008658 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1341692008659 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1341692008660 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1341692008661 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1341692008662 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1341692008663 Competence protein; Region: Competence; pfam03772 1341692008664 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1341692008665 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1341692008666 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1341692008667 germination protease; Provisional; Region: PRK12362 1341692008668 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 1341692008669 stage II sporulation protein P; Region: spore_II_P; TIGR02867 1341692008670 GTP-binding protein LepA; Provisional; Region: PRK05433 1341692008671 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1341692008672 G1 box; other site 1341692008673 putative GEF interaction site [polypeptide binding]; other site 1341692008674 GTP/Mg2+ binding site [chemical binding]; other site 1341692008675 Switch I region; other site 1341692008676 G2 box; other site 1341692008677 G3 box; other site 1341692008678 Switch II region; other site 1341692008679 G4 box; other site 1341692008680 G5 box; other site 1341692008681 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 1341692008682 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 1341692008683 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1341692008684 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 1341692008685 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 1341692008686 FeS/SAM binding site; other site 1341692008687 HemN C-terminal domain; Region: HemN_C; pfam06969 1341692008688 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1341692008689 HTH domain; Region: HTH_11; cl17392 1341692008690 GrpE; Region: GrpE; pfam01025 1341692008691 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 1341692008692 dimer interface [polypeptide binding]; other site 1341692008693 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1341692008694 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1341692008695 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1341692008696 nucleotide binding site [chemical binding]; other site 1341692008697 NEF interaction site [polypeptide binding]; other site 1341692008698 SBD interface [polypeptide binding]; other site 1341692008699 chaperone protein DnaJ; Provisional; Region: PRK14297 1341692008700 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 1341692008701 HSP70 interaction site [polypeptide binding]; other site 1341692008702 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1341692008703 substrate binding site [polypeptide binding]; other site 1341692008704 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1341692008705 Zn binding sites [ion binding]; other site 1341692008706 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1341692008707 dimer interface [polypeptide binding]; other site 1341692008708 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1341692008709 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 1341692008710 S-adenosylmethionine binding site [chemical binding]; other site 1341692008711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1341692008712 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1341692008713 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1341692008714 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1341692008715 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 1341692008716 FeS/SAM binding site; other site 1341692008717 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 1341692008718 nucleotide binding site/active site [active] 1341692008719 HIT family signature motif; other site 1341692008720 catalytic residue [active] 1341692008721 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1341692008722 Yqey-like protein; Region: YqeY; pfam09424 1341692008723 YabP family; Region: YabP; cl06766 1341692008724 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 1341692008725 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 1341692008726 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 1341692008727 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 1341692008728 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692008729 Zn2+ binding site [ion binding]; other site 1341692008730 Mg2+ binding site [ion binding]; other site 1341692008731 metal-binding heat shock protein; Provisional; Region: PRK00016 1341692008732 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1341692008733 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 1341692008734 active site 1341692008735 GTPase Era; Reviewed; Region: era; PRK00089 1341692008736 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1341692008737 G1 box; other site 1341692008738 GTP/Mg2+ binding site [chemical binding]; other site 1341692008739 Switch I region; other site 1341692008740 G2 box; other site 1341692008741 Switch II region; other site 1341692008742 G3 box; other site 1341692008743 G4 box; other site 1341692008744 G5 box; other site 1341692008745 KH domain; Region: KH_2; pfam07650 1341692008746 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1341692008747 Recombination protein O N terminal; Region: RecO_N; pfam11967 1341692008748 Recombination protein O C terminal; Region: RecO_C; pfam02565 1341692008749 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 1341692008750 HTH domain; Region: HTH_11; pfam08279 1341692008751 FOG: CBS domain [General function prediction only]; Region: COG0517 1341692008752 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 1341692008753 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1341692008754 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1341692008755 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1341692008756 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1341692008757 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1341692008758 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1341692008759 WHG domain; Region: WHG; pfam13305 1341692008760 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 1341692008761 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1341692008762 putative substrate translocation pore; other site 1341692008763 Isochorismatase family; Region: Isochorismatase; pfam00857 1341692008764 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1341692008765 catalytic triad [active] 1341692008766 conserved cis-peptide bond; other site 1341692008767 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1341692008768 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 1341692008769 DNA primase; Validated; Region: dnaG; PRK05667 1341692008770 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1341692008771 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1341692008772 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 1341692008773 active site 1341692008774 metal binding site [ion binding]; metal-binding site 1341692008775 interdomain interaction site; other site 1341692008776 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1341692008777 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1341692008778 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1341692008779 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 1341692008780 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692008781 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1341692008782 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 1341692008783 DNA binding residues [nucleotide binding] 1341692008784 Protein of unknown function (DUF2679); Region: DUF2679; pfam10882 1341692008785 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1341692008786 Family of unknown function (DUF633); Region: DUF633; pfam04816 1341692008787 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1341692008788 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1341692008789 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1341692008790 Putative zinc ribbon domain; Region: DUF164; pfam02591 1341692008791 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 1341692008792 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1341692008793 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1341692008794 hypothetical protein; Provisional; Region: PRK10621 1341692008795 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 1341692008796 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1341692008797 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1341692008798 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1341692008799 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 1341692008800 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1341692008801 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692008802 Walker A/P-loop; other site 1341692008803 ATP binding site [chemical binding]; other site 1341692008804 Q-loop/lid; other site 1341692008805 ABC transporter signature motif; other site 1341692008806 Walker B; other site 1341692008807 D-loop; other site 1341692008808 H-loop/switch region; other site 1341692008809 ABC transporter; Region: ABC_tran_2; pfam12848 1341692008810 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1341692008811 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: sialate_O-acetylesterase_like2; cd01828 1341692008812 active site 1341692008813 catalytic triad [active] 1341692008814 oxyanion hole [active] 1341692008815 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 1341692008816 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1341692008817 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1341692008818 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 1341692008819 protein binding site [polypeptide binding]; other site 1341692008820 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692008821 MarR family; Region: MarR_2; pfam12802 1341692008822 MarR family; Region: MarR_2; cl17246 1341692008823 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1341692008824 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1341692008825 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 1341692008826 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1341692008827 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 1341692008828 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1341692008829 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1341692008830 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1341692008831 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1341692008832 Spore germination protein; Region: Spore_permease; cl17796 1341692008833 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1341692008834 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1341692008835 active site 1341692008836 catalytic triad [active] 1341692008837 oxyanion hole [active] 1341692008838 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1341692008839 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1341692008840 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1341692008841 ATP binding site [chemical binding]; other site 1341692008842 active site 1341692008843 substrate binding site [chemical binding]; other site 1341692008844 amidophosphoribosyltransferase; Provisional; Region: PRK05793 1341692008845 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 1341692008846 active site 1341692008847 tetramer interface [polypeptide binding]; other site 1341692008848 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1341692008849 active site 1341692008850 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1341692008851 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 1341692008852 dimerization interface [polypeptide binding]; other site 1341692008853 putative ATP binding site [chemical binding]; other site 1341692008854 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1341692008855 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1341692008856 active site 1341692008857 substrate binding site [chemical binding]; other site 1341692008858 cosubstrate binding site; other site 1341692008859 catalytic site [active] 1341692008860 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1341692008861 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 1341692008862 purine monophosphate binding site [chemical binding]; other site 1341692008863 dimer interface [polypeptide binding]; other site 1341692008864 putative catalytic residues [active] 1341692008865 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1341692008866 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1341692008867 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1341692008868 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1341692008869 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1341692008870 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1341692008871 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 1341692008872 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1341692008873 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1341692008874 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692008875 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692008876 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692008877 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 1341692008878 hypothetical protein; Validated; Region: PRK07121 1341692008879 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1341692008880 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1341692008881 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1341692008882 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 1341692008883 catalytic loop [active] 1341692008884 iron binding site [ion binding]; other site 1341692008885 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1341692008886 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1341692008887 4Fe-4S binding domain; Region: Fer4; pfam00037 1341692008888 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 1341692008889 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1341692008890 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1341692008891 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1341692008892 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1341692008893 DNA binding residues [nucleotide binding] 1341692008894 drug binding residues [chemical binding]; other site 1341692008895 dimer interface [polypeptide binding]; other site 1341692008896 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1341692008897 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 1341692008898 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1341692008899 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1341692008900 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1341692008901 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1341692008902 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1341692008903 homodimer interface [polypeptide binding]; other site 1341692008904 substrate-cofactor binding pocket; other site 1341692008905 catalytic residue [active] 1341692008906 TRAM domain; Region: TRAM; pfam01938 1341692008907 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1341692008908 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 1341692008909 S-adenosylmethionine binding site [chemical binding]; other site 1341692008910 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1341692008911 Sulfatase; Region: Sulfatase; pfam00884 1341692008912 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1341692008913 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1341692008914 active site 1341692008915 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 1341692008916 NMT1/THI5 like; Region: NMT1; pfam09084 1341692008917 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1341692008918 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1341692008919 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1341692008920 Walker A/P-loop; other site 1341692008921 ATP binding site [chemical binding]; other site 1341692008922 Q-loop/lid; other site 1341692008923 ABC transporter signature motif; other site 1341692008924 Walker B; other site 1341692008925 D-loop; other site 1341692008926 H-loop/switch region; other site 1341692008927 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692008928 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 1341692008929 active site 1341692008930 phosphorylation site [posttranslational modification] 1341692008931 intermolecular recognition site; other site 1341692008932 dimerization interface [polypeptide binding]; other site 1341692008933 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 1341692008934 DNA binding site [nucleotide binding] 1341692008935 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 1341692008936 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1341692008937 Beta-lactamase; Region: Beta-lactamase; pfam00144 1341692008938 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1341692008939 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1341692008940 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692008941 DNA-binding site [nucleotide binding]; DNA binding site 1341692008942 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 1341692008943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692008944 homodimer interface [polypeptide binding]; other site 1341692008945 catalytic residue [active] 1341692008946 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1341692008947 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 1341692008948 putative substrate translocation pore; other site 1341692008949 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1341692008950 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1341692008951 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1341692008952 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 1341692008953 putative active site [active] 1341692008954 catalytic site [active] 1341692008955 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 1341692008956 putative active site [active] 1341692008957 catalytic site [active] 1341692008958 Transcription elongation factor Elf1 like; Region: Elf1; cl02038 1341692008959 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1341692008960 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1341692008961 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692008962 Walker A/P-loop; other site 1341692008963 ATP binding site [chemical binding]; other site 1341692008964 Q-loop/lid; other site 1341692008965 ABC transporter signature motif; other site 1341692008966 Walker B; other site 1341692008967 D-loop; other site 1341692008968 H-loop/switch region; other site 1341692008969 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1341692008970 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1341692008971 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1341692008972 Walker A/P-loop; other site 1341692008973 ATP binding site [chemical binding]; other site 1341692008974 Q-loop/lid; other site 1341692008975 ABC transporter signature motif; other site 1341692008976 Walker B; other site 1341692008977 D-loop; other site 1341692008978 H-loop/switch region; other site 1341692008979 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1341692008980 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 1341692008981 [4Fe-4S] binding site [ion binding]; other site 1341692008982 molybdopterin cofactor binding site; other site 1341692008983 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_CT_Formate-Dh_H; cd02790 1341692008984 molybdopterin cofactor binding site; other site 1341692008985 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1341692008986 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 1341692008987 ligand binding site [chemical binding]; other site 1341692008988 calcium binding site [ion binding]; other site 1341692008989 CHASE3 domain; Region: CHASE3; pfam05227 1341692008990 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 1341692008991 dimerization interface [polypeptide binding]; other site 1341692008992 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692008993 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692008994 dimer interface [polypeptide binding]; other site 1341692008995 putative CheW interface [polypeptide binding]; other site 1341692008996 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1341692008997 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1341692008998 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1341692008999 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692009000 Coenzyme A binding pocket [chemical binding]; other site 1341692009001 Bacterial Ig-like domain; Region: Big_5; pfam13205 1341692009002 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1341692009003 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 1341692009004 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 1341692009005 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 1341692009006 Predicted secreted protein [Function unknown]; Region: COG4086 1341692009007 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 1341692009008 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1341692009009 Cache domain; Region: Cache_1; pfam02743 1341692009010 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1341692009011 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692009012 dimer interface [polypeptide binding]; other site 1341692009013 putative CheW interface [polypeptide binding]; other site 1341692009014 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1341692009015 2-isopropylmalate synthase; Validated; Region: PRK00915 1341692009016 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1341692009017 active site 1341692009018 catalytic residues [active] 1341692009019 metal binding site [ion binding]; metal-binding site 1341692009020 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1341692009021 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1341692009022 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1341692009023 substrate binding site [chemical binding]; other site 1341692009024 ligand binding site [chemical binding]; other site 1341692009025 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 1341692009026 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 1341692009027 substrate binding site [chemical binding]; other site 1341692009028 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1341692009029 tartrate dehydrogenase; Region: TTC; TIGR02089 1341692009030 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1341692009031 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1341692009032 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 1341692009033 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1341692009034 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 1341692009035 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 1341692009036 ACS interaction site; other site 1341692009037 CODH interaction site; other site 1341692009038 metal cluster binding site [ion binding]; other site 1341692009039 helicase 45; Provisional; Region: PTZ00424 1341692009040 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 1341692009041 ATP binding site [chemical binding]; other site 1341692009042 putative Mg++ binding site [ion binding]; other site 1341692009043 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 1341692009044 nucleotide binding region [chemical binding]; other site 1341692009045 ATP-binding site [chemical binding]; other site 1341692009046 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1341692009047 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 1341692009048 oligomer interface [polypeptide binding]; other site 1341692009049 metal binding site [ion binding]; metal-binding site 1341692009050 metal binding site [ion binding]; metal-binding site 1341692009051 putative Cl binding site [ion binding]; other site 1341692009052 aspartate ring; other site 1341692009053 basic sphincter; other site 1341692009054 hydrophobic gate; other site 1341692009055 periplasmic entrance; other site 1341692009056 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1341692009057 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 1341692009058 Walker A/P-loop; other site 1341692009059 ATP binding site [chemical binding]; other site 1341692009060 Q-loop/lid; other site 1341692009061 ABC transporter signature motif; other site 1341692009062 Walker B; other site 1341692009063 D-loop; other site 1341692009064 H-loop/switch region; other site 1341692009065 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 1341692009066 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692009067 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 1341692009068 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692009069 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692009070 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 1341692009071 active site 1341692009072 phosphorylation site [posttranslational modification] 1341692009073 intermolecular recognition site; other site 1341692009074 dimerization interface [polypeptide binding]; other site 1341692009075 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 1341692009076 DNA binding site [nucleotide binding] 1341692009077 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692009078 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1341692009079 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 1341692009080 dimer interface [polypeptide binding]; other site 1341692009081 phosphorylation site [posttranslational modification] 1341692009082 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 1341692009083 ATP binding site [chemical binding]; other site 1341692009084 Mg2+ binding site [ion binding]; other site 1341692009085 G-X-G motif; other site 1341692009086 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1341692009087 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 1341692009088 ATP binding site [chemical binding]; other site 1341692009089 Mg2+ binding site [ion binding]; other site 1341692009090 G-X-G motif; other site 1341692009091 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 1341692009092 anchoring element; other site 1341692009093 dimer interface [polypeptide binding]; other site 1341692009094 ATP binding site [chemical binding]; other site 1341692009095 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1341692009096 active site 1341692009097 metal binding site [ion binding]; metal-binding site 1341692009098 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1341692009099 DNA topoisomerase IV subunit A; Provisional; Region: PRK13979 1341692009100 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 1341692009101 CAP-like domain; other site 1341692009102 active site 1341692009103 primary dimer interface [polypeptide binding]; other site 1341692009104 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1341692009105 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1341692009106 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1341692009107 DJ-1 family protein; Region: not_thiJ; TIGR01383 1341692009108 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1341692009109 conserved cys residue [active] 1341692009110 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1341692009111 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1341692009112 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1341692009113 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1341692009114 DHH family; Region: DHH; pfam01368 1341692009115 DHHA1 domain; Region: DHHA1; pfam02272 1341692009116 arginine repressor; Provisional; Region: argR; PRK00441 1341692009117 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1341692009118 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1341692009119 amino acid transporter; Region: 2A0306; TIGR00909 1341692009120 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1341692009121 arginine deiminase; Provisional; Region: PRK01388 1341692009122 ornithine carbamoyltransferase; Provisional; Region: PRK04284 1341692009123 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1341692009124 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1341692009125 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1341692009126 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1341692009127 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1341692009128 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1341692009129 putative substrate binding site [chemical binding]; other site 1341692009130 nucleotide binding site [chemical binding]; other site 1341692009131 nucleotide binding site [chemical binding]; other site 1341692009132 homodimer interface [polypeptide binding]; other site 1341692009133 Cache domain; Region: Cache_1; pfam02743 1341692009134 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 1341692009135 dimerization interface [polypeptide binding]; other site 1341692009136 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692009137 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692009138 dimer interface [polypeptide binding]; other site 1341692009139 putative CheW interface [polypeptide binding]; other site 1341692009140 Predicted transcriptional regulators [Transcription]; Region: COG1378 1341692009141 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 1341692009142 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 1341692009143 C-terminal domain interface [polypeptide binding]; other site 1341692009144 sugar binding site [chemical binding]; other site 1341692009145 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 1341692009146 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 1341692009147 active site 1341692009148 homodimer interface [polypeptide binding]; other site 1341692009149 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1341692009150 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 1341692009151 dimer interface [polypeptide binding]; other site 1341692009152 PYR/PP interface [polypeptide binding]; other site 1341692009153 TPP binding site [chemical binding]; other site 1341692009154 substrate binding site [chemical binding]; other site 1341692009155 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1341692009156 Domain of unknown function; Region: EKR; smart00890 1341692009157 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 1341692009158 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1341692009159 TPP-binding site [chemical binding]; other site 1341692009160 dimer interface [polypeptide binding]; other site 1341692009161 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 1341692009162 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1341692009163 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 1341692009164 motif II; other site 1341692009165 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 1341692009166 homodimer interface [polypeptide binding]; other site 1341692009167 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1341692009168 substrate-cofactor binding pocket; other site 1341692009169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692009170 catalytic residue [active] 1341692009171 Uncharacterized conserved protein [Function unknown]; Region: COG1315 1341692009172 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1341692009173 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13490 1341692009174 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1341692009175 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 1341692009176 active site 1341692009177 phosphorylation site [posttranslational modification] 1341692009178 intermolecular recognition site; other site 1341692009179 dimerization interface [polypeptide binding]; other site 1341692009180 CheB methylesterase; Region: CheB_methylest; pfam01339 1341692009181 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1341692009182 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1341692009183 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1341692009184 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1341692009185 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 1341692009186 putative binding surface; other site 1341692009187 active site 1341692009188 P2 response regulator binding domain; Region: P2; pfam07194 1341692009189 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1341692009190 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 1341692009191 ATP binding site [chemical binding]; other site 1341692009192 Mg2+ binding site [ion binding]; other site 1341692009193 G-X-G motif; other site 1341692009194 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 1341692009195 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1341692009196 CheC-like family; Region: CheC; pfam04509 1341692009197 CheC-like family; Region: CheC; pfam04509 1341692009198 Response regulator receiver domain; Region: Response_reg; pfam00072 1341692009199 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 1341692009200 active site 1341692009201 phosphorylation site [posttranslational modification] 1341692009202 intermolecular recognition site; other site 1341692009203 dimerization interface [polypeptide binding]; other site 1341692009204 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1341692009205 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1341692009206 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1341692009207 flagellar motor switch protein; Validated; Region: PRK08119 1341692009208 CheC-like family; Region: CheC; pfam04509 1341692009209 CheC-like family; Region: CheC; pfam04509 1341692009210 flagellar motor switch protein FliN; Region: fliN; TIGR02480 1341692009211 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1341692009212 FlgN protein; Region: FlgN; pfam05130 1341692009213 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 1341692009214 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1341692009215 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1341692009216 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1341692009217 flagellar assembly protein FliW; Provisional; Region: PRK13285 1341692009218 Global regulator protein family; Region: CsrA; pfam02599 1341692009219 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 1341692009220 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1341692009221 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1341692009222 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1341692009223 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1341692009224 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1341692009225 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1341692009226 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1341692009227 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 1341692009228 active site 1341692009229 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 1341692009230 binding surface 1341692009231 TPR motif; other site 1341692009232 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1341692009233 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1341692009234 binding surface 1341692009235 TPR motif; other site 1341692009236 TPR repeat; Region: TPR_11; pfam13414 1341692009237 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1341692009238 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1341692009239 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 1341692009240 Global regulator protein family; Region: CsrA; pfam02599 1341692009241 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1341692009242 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1341692009243 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1341692009244 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 1341692009245 active site 1341692009246 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 1341692009247 TPR motif; other site 1341692009248 binding surface 1341692009249 TPR repeat; Region: TPR_11; pfam13414 1341692009250 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 1341692009251 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1341692009252 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1341692009253 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 1341692009254 binding surface 1341692009255 TPR motif; other site 1341692009256 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1341692009257 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1341692009258 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1341692009259 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 1341692009260 active site 1341692009261 DNA binding site [nucleotide binding] 1341692009262 Int/Topo IB signature motif; other site 1341692009263 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 1341692009264 active site 1341692009265 Int/Topo IB signature motif; other site 1341692009266 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 1341692009267 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 1341692009268 DNA binding site [nucleotide binding] 1341692009269 active site 1341692009270 Int/Topo IB signature motif; other site 1341692009271 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 1341692009272 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1341692009273 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1341692009274 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1341692009275 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1341692009276 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1341692009277 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1341692009278 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 1341692009279 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 1341692009280 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1341692009281 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1341692009282 active site 1341692009283 NTP binding site [chemical binding]; other site 1341692009284 metal binding triad [ion binding]; metal-binding site 1341692009285 antibiotic binding site [chemical binding]; other site 1341692009286 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1341692009287 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1341692009288 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1341692009289 putative metal binding site; other site 1341692009290 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 1341692009291 binding surface 1341692009292 TPR motif; other site 1341692009293 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 1341692009294 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1341692009295 metal binding triad [ion binding]; metal-binding site 1341692009296 Protein of unknown function DUF86; Region: DUF86; pfam01934 1341692009297 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 1341692009298 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1341692009299 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1341692009300 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1341692009301 NAD(P) binding site [chemical binding]; other site 1341692009302 active site 1341692009303 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 1341692009304 Predicted membrane protein [Function unknown]; Region: COG4640 1341692009305 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1341692009306 Putative motility protein; Region: YjfB_motility; pfam14070 1341692009307 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692009308 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692009309 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692009310 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1341692009311 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1341692009312 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1341692009313 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1341692009314 homoserine dehydrogenase; Provisional; Region: PRK06349 1341692009315 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1341692009316 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1341692009317 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 1341692009318 Protein of unknown function (DUF441); Region: DUF441; pfam04284 1341692009319 Protein of unknown function (DUF3867); Region: DUF3867; pfam12983 1341692009320 YopX protein; Region: YopX; cl09859 1341692009321 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1341692009322 trimer interface [polypeptide binding]; other site 1341692009323 active site 1341692009324 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1341692009325 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 1341692009326 dimer interface [polypeptide binding]; other site 1341692009327 ssDNA binding site [nucleotide binding]; other site 1341692009328 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1341692009329 Cache domain; Region: Cache_1; pfam02743 1341692009330 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692009331 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692009332 dimer interface [polypeptide binding]; other site 1341692009333 putative CheW interface [polypeptide binding]; other site 1341692009334 flagellin; Provisional; Region: PRK12804 1341692009335 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1341692009336 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1341692009337 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12623 1341692009338 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12630 1341692009339 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1341692009340 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1341692009341 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 1341692009342 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1341692009343 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1341692009344 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1341692009345 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1341692009346 FliG C-terminal domain; Region: FliG_C; pfam01706 1341692009347 flagellar assembly protein H; Validated; Region: fliH; PRK06669 1341692009348 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 1341692009349 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1341692009350 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 1341692009351 Walker A motif/ATP binding site; other site 1341692009352 Walker B motif; other site 1341692009353 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1341692009354 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 1341692009355 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1341692009356 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 1341692009357 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 1341692009358 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 1341692009359 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1341692009360 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1341692009361 Flagellar protein (FlbD); Region: FlbD; pfam06289 1341692009362 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1341692009363 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 1341692009364 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1341692009365 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 1341692009366 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional; Region: PRK12772 1341692009367 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1341692009368 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1341692009369 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1341692009370 FHIPEP family; Region: FHIPEP; pfam00771 1341692009371 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1341692009372 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 1341692009373 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1341692009374 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 1341692009375 P-loop; other site 1341692009376 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 1341692009377 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1341692009378 Flagellar protein YcgR; Region: YcgR_2; pfam12945 1341692009379 PilZ domain; Region: PilZ; pfam07238 1341692009380 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 1341692009381 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692009382 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1341692009383 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 1341692009384 DNA binding residues [nucleotide binding] 1341692009385 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 1341692009386 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1341692009387 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1341692009388 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12817 1341692009389 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1341692009390 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1341692009391 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 1341692009392 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 1341692009393 DRTGG domain; Region: DRTGG; pfam07085 1341692009394 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 1341692009395 DHHA2 domain; Region: DHHA2; pfam02833 1341692009396 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1341692009397 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1341692009398 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1341692009399 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1341692009400 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 1341692009401 motif II; other site 1341692009402 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1341692009403 AAA domain; Region: AAA_32; pfam13654 1341692009404 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1341692009405 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1341692009406 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1341692009407 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1341692009408 GTP-binding protein YchF; Reviewed; Region: PRK09601 1341692009409 YchF GTPase; Region: YchF; cd01900 1341692009410 G1 box; other site 1341692009411 GTP/Mg2+ binding site [chemical binding]; other site 1341692009412 Switch I region; other site 1341692009413 G2 box; other site 1341692009414 Switch II region; other site 1341692009415 G3 box; other site 1341692009416 G4 box; other site 1341692009417 G5 box; other site 1341692009418 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 1341692009419 cell division protein MraZ; Reviewed; Region: PRK00326 1341692009420 MraZ protein; Region: MraZ; pfam02381 1341692009421 MraZ protein; Region: MraZ; pfam02381 1341692009422 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1341692009423 MraW methylase family; Region: Methyltransf_5; cl17771 1341692009424 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1341692009425 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1341692009426 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1341692009427 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1341692009428 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1341692009429 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1341692009430 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1341692009431 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1341692009432 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1341692009433 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1341692009434 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1341692009435 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1341692009436 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 1341692009437 Mg++ binding site [ion binding]; other site 1341692009438 putative catalytic motif [active] 1341692009439 putative substrate binding site [chemical binding]; other site 1341692009440 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1341692009441 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1341692009442 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1341692009443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 1341692009444 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 1341692009445 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 1341692009446 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 1341692009447 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1341692009448 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1341692009449 catalytic residue [active] 1341692009450 Protein of unknown function (DUF552); Region: DUF552; pfam04472 1341692009451 YGGT family; Region: YGGT; pfam02325 1341692009452 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1341692009453 DivIVA protein; Region: DivIVA; pfam05103 1341692009454 DivIVA domain; Region: DivI1A_domain; TIGR03544 1341692009455 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1341692009456 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1341692009457 lipoprotein signal peptidase; Provisional; Region: PRK14791 1341692009458 lipoprotein signal peptidase; Provisional; Region: PRK14787 1341692009459 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1341692009460 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 1341692009461 RNA binding surface [nucleotide binding]; other site 1341692009462 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1341692009463 active site 1341692009464 uracil transporter; Provisional; Region: PRK10720 1341692009465 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1341692009466 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1341692009467 active site 1341692009468 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1341692009469 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1341692009470 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1341692009471 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1341692009472 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1341692009473 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 1341692009474 dimer interface [polypeptide binding]; other site 1341692009475 FMN binding site [chemical binding]; other site 1341692009476 VanZ like family; Region: VanZ; cl01971 1341692009477 Phospholipid methyltransferase; Region: PEMT; pfam04191 1341692009478 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 1341692009479 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 1341692009480 ligand binding site [chemical binding]; other site 1341692009481 flexible hinge region; other site 1341692009482 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 1341692009483 putative switch regulator; other site 1341692009484 non-specific DNA interactions [nucleotide binding]; other site 1341692009485 DNA binding site [nucleotide binding] 1341692009486 sequence specific DNA binding site [nucleotide binding]; other site 1341692009487 putative cAMP binding site [chemical binding]; other site 1341692009488 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1341692009489 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 1341692009490 S-adenosylmethionine binding site [chemical binding]; other site 1341692009491 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692009492 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1341692009493 Coenzyme A binding pocket [chemical binding]; other site 1341692009494 Staphylococcal AgrD protein; Region: AgrD; cl05477 1341692009495 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 1341692009496 ATP binding site [chemical binding]; other site 1341692009497 Mg2+ binding site [ion binding]; other site 1341692009498 G-X-G motif; other site 1341692009499 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1341692009500 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1341692009501 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 1341692009502 Walker A motif; other site 1341692009503 ATP binding site [chemical binding]; other site 1341692009504 Walker B motif; other site 1341692009505 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1341692009506 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1341692009507 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1341692009508 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1341692009509 Acylphosphatase; Region: Acylphosphatase; cl00551 1341692009510 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1341692009511 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1341692009512 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 1341692009513 active site 1341692009514 elongation factor P; Validated; Region: PRK00529 1341692009515 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1341692009516 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 1341692009517 RNA binding site [nucleotide binding]; other site 1341692009518 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 1341692009519 RNA binding site [nucleotide binding]; other site 1341692009520 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 1341692009521 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 1341692009522 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 1341692009523 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 1341692009524 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 1341692009525 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 1341692009526 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 1341692009527 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 1341692009528 Asp23 family; Region: Asp23; pfam03780 1341692009529 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1341692009530 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1341692009531 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 1341692009532 generic binding surface II; other site 1341692009533 generic binding surface I; other site 1341692009534 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1341692009535 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1341692009536 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1341692009537 substrate binding pocket [chemical binding]; other site 1341692009538 chain length determination region; other site 1341692009539 substrate-Mg2+ binding site; other site 1341692009540 catalytic residues [active] 1341692009541 aspartate-rich region 1; other site 1341692009542 active site lid residues [active] 1341692009543 aspartate-rich region 2; other site 1341692009544 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1341692009545 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 1341692009546 TPP-binding site; other site 1341692009547 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 1341692009548 PYR/PP interface [polypeptide binding]; other site 1341692009549 dimer interface [polypeptide binding]; other site 1341692009550 TPP binding site [chemical binding]; other site 1341692009551 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1341692009552 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1341692009553 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 1341692009554 RNA binding surface [nucleotide binding]; other site 1341692009555 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1341692009556 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 1341692009557 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 1341692009558 arginine repressor; Provisional; Region: argR; PRK00441 1341692009559 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1341692009560 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1341692009561 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1341692009562 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1341692009563 Walker A/P-loop; other site 1341692009564 ATP binding site [chemical binding]; other site 1341692009565 Q-loop/lid; other site 1341692009566 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1341692009567 ABC transporter signature motif; other site 1341692009568 Walker B; other site 1341692009569 D-loop; other site 1341692009570 H-loop/switch region; other site 1341692009571 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 1341692009572 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 1341692009573 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 1341692009574 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 1341692009575 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 1341692009576 active site 1341692009577 phosphorylation site [posttranslational modification] 1341692009578 intermolecular recognition site; other site 1341692009579 dimerization interface [polypeptide binding]; other site 1341692009580 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 1341692009581 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 1341692009582 dimer interface [polypeptide binding]; other site 1341692009583 ADP-ribose binding site [chemical binding]; other site 1341692009584 active site 1341692009585 nudix motif; other site 1341692009586 metal binding site [ion binding]; metal-binding site 1341692009587 Integral membrane protein DUF95; Region: DUF95; cl00572 1341692009588 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1341692009589 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 1341692009590 active site 1341692009591 DNA binding site [nucleotide binding] 1341692009592 Int/Topo IB signature motif; other site 1341692009593 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1341692009594 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1341692009595 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1341692009596 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1341692009597 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1341692009598 active site 1341692009599 NTP binding site [chemical binding]; other site 1341692009600 metal binding triad [ion binding]; metal-binding site 1341692009601 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1341692009602 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 1341692009603 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 1341692009604 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 1341692009605 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1341692009606 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1341692009607 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1341692009608 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1341692009609 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1341692009610 SLBB domain; Region: SLBB; pfam10531 1341692009611 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 1341692009612 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 1341692009613 FMN-binding domain; Region: FMN_bind; cl01081 1341692009614 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1341692009615 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 1341692009616 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 1341692009617 Putative Fe-S cluster; Region: FeS; cl17515 1341692009618 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 1341692009619 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1341692009620 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 1341692009621 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 1341692009622 trimer interface [polypeptide binding]; other site 1341692009623 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1341692009624 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1341692009625 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 1341692009626 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1341692009627 active site 1341692009628 motif I; other site 1341692009629 motif II; other site 1341692009630 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1341692009631 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 1341692009632 putative homodimer interface [polypeptide binding]; other site 1341692009633 putative homotetramer interface [polypeptide binding]; other site 1341692009634 putative allosteric switch controlling residues; other site 1341692009635 putative metal binding site [ion binding]; other site 1341692009636 putative homodimer-homodimer interface [polypeptide binding]; other site 1341692009637 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 1341692009638 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1341692009639 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1341692009640 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1341692009641 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 1341692009642 dimer interface [polypeptide binding]; other site 1341692009643 active site 1341692009644 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1341692009645 folate binding site [chemical binding]; other site 1341692009646 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 1341692009647 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1341692009648 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1341692009649 DNA binding residues [nucleotide binding] 1341692009650 putative dimer interface [polypeptide binding]; other site 1341692009651 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 1341692009652 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1341692009653 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 1341692009654 dimerization interface [polypeptide binding]; other site 1341692009655 ATP binding site [chemical binding]; other site 1341692009656 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 1341692009657 dimerization interface [polypeptide binding]; other site 1341692009658 ATP binding site [chemical binding]; other site 1341692009659 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1341692009660 putative active site [active] 1341692009661 catalytic triad [active] 1341692009662 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1341692009663 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1341692009664 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1341692009665 putative active site [active] 1341692009666 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 1341692009667 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1341692009668 putative NAD(P) binding site [chemical binding]; other site 1341692009669 catalytic Zn binding site [ion binding]; other site 1341692009670 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1341692009671 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1341692009672 nucleotide binding site [chemical binding]; other site 1341692009673 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_10; cd12171 1341692009674 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1341692009675 putative ligand binding site [chemical binding]; other site 1341692009676 putative NAD binding site [chemical binding]; other site 1341692009677 catalytic site [active] 1341692009678 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1341692009679 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1341692009680 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1341692009681 gluconate transporter; Region: gntP; TIGR00791 1341692009682 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 1341692009683 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 1341692009684 N- and C-terminal domain interface [polypeptide binding]; other site 1341692009685 active site 1341692009686 catalytic site [active] 1341692009687 metal binding site [ion binding]; metal-binding site 1341692009688 carbohydrate binding site [chemical binding]; other site 1341692009689 ATP binding site [chemical binding]; other site 1341692009690 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 1341692009691 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1341692009692 putative ligand binding site [chemical binding]; other site 1341692009693 putative NAD binding site [chemical binding]; other site 1341692009694 catalytic site [active] 1341692009695 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1341692009696 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1341692009697 active site 1341692009698 intersubunit interface [polypeptide binding]; other site 1341692009699 catalytic residue [active] 1341692009700 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 1341692009701 dimerization interface [polypeptide binding]; other site 1341692009702 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692009703 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692009704 dimer interface [polypeptide binding]; other site 1341692009705 putative CheW interface [polypeptide binding]; other site 1341692009706 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1341692009707 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1341692009708 EDD domain protein, DegV family; Region: DegV; TIGR00762 1341692009709 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1341692009710 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 1341692009711 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 1341692009712 dimer interface [polypeptide binding]; other site 1341692009713 motif 1; other site 1341692009714 active site 1341692009715 motif 2; other site 1341692009716 motif 3; other site 1341692009717 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1341692009718 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1341692009719 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 1341692009720 histidinol dehydrogenase; Region: hisD; TIGR00069 1341692009721 NAD binding site [chemical binding]; other site 1341692009722 dimerization interface [polypeptide binding]; other site 1341692009723 product binding site; other site 1341692009724 substrate binding site [chemical binding]; other site 1341692009725 zinc binding site [ion binding]; other site 1341692009726 catalytic residues [active] 1341692009727 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1341692009728 putative active site pocket [active] 1341692009729 4-fold oligomerization interface [polypeptide binding]; other site 1341692009730 metal binding residues [ion binding]; metal-binding site 1341692009731 3-fold/trimer interface [polypeptide binding]; other site 1341692009732 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1341692009733 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1341692009734 putative active site [active] 1341692009735 oxyanion strand; other site 1341692009736 catalytic triad [active] 1341692009737 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 1341692009738 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1341692009739 catalytic residues [active] 1341692009740 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1341692009741 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 1341692009742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692009743 homodimer interface [polypeptide binding]; other site 1341692009744 catalytic residue [active] 1341692009745 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 1341692009746 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1341692009747 substrate binding site [chemical binding]; other site 1341692009748 glutamase interaction surface [polypeptide binding]; other site 1341692009749 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1341692009750 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 1341692009751 metal binding site [ion binding]; metal-binding site 1341692009752 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 1341692009753 active site 1341692009754 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692009755 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 1341692009756 active site 1341692009757 phosphorylation site [posttranslational modification] 1341692009758 intermolecular recognition site; other site 1341692009759 dimerization interface [polypeptide binding]; other site 1341692009760 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 1341692009761 DNA binding site [nucleotide binding] 1341692009762 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692009763 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 1341692009764 dimerization interface [polypeptide binding]; other site 1341692009765 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 1341692009766 dimer interface [polypeptide binding]; other site 1341692009767 phosphorylation site [posttranslational modification] 1341692009768 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 1341692009769 ATP binding site [chemical binding]; other site 1341692009770 Mg2+ binding site [ion binding]; other site 1341692009771 G-X-G motif; other site 1341692009772 Predicted permeases [General function prediction only]; Region: COG0679 1341692009773 histidinol-phosphatase; Provisional; Region: PRK05588 1341692009774 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1341692009775 active site 1341692009776 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1341692009777 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 1341692009778 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1341692009779 dimer interface [polypeptide binding]; other site 1341692009780 active site 1341692009781 glycine loop; other site 1341692009782 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1341692009783 4Fe-4S binding domain; Region: Fer4; pfam00037 1341692009784 4Fe-4S binding domain; Region: Fer4; cl02805 1341692009785 Response regulator receiver domain; Region: Response_reg; pfam00072 1341692009786 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 1341692009787 active site 1341692009788 phosphorylation site [posttranslational modification] 1341692009789 intermolecular recognition site; other site 1341692009790 dimerization interface [polypeptide binding]; other site 1341692009791 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692009792 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1341692009793 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692009794 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1341692009795 Sensory domain found in PocR; Region: PocR; pfam10114 1341692009796 Histidine kinase; Region: His_kinase; pfam06580 1341692009797 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 1341692009798 ATP binding site [chemical binding]; other site 1341692009799 Mg2+ binding site [ion binding]; other site 1341692009800 G-X-G motif; other site 1341692009801 propanediol utilization protein PduB; Provisional; Region: PRK15415 1341692009802 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 1341692009803 putative hexamer interface [polypeptide binding]; other site 1341692009804 putative hexagonal pore; other site 1341692009805 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 1341692009806 putative hexamer interface [polypeptide binding]; other site 1341692009807 putative hexagonal pore; other site 1341692009808 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1341692009809 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 1341692009810 putative active site [active] 1341692009811 metal binding site [ion binding]; metal-binding site 1341692009812 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1341692009813 amphipathic channel; other site 1341692009814 Asn-Pro-Ala signature motifs; other site 1341692009815 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 1341692009816 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 1341692009817 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1341692009818 nucleotide binding site [chemical binding]; other site 1341692009819 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1341692009820 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 1341692009821 Hexamer interface [polypeptide binding]; other site 1341692009822 Hexagonal pore residue; other site 1341692009823 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 1341692009824 Hexamer/Pentamer interface [polypeptide binding]; other site 1341692009825 central pore; other site 1341692009826 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 1341692009827 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 1341692009828 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1341692009829 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 1341692009830 Hexamer interface [polypeptide binding]; other site 1341692009831 Hexagonal pore residue; other site 1341692009832 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1341692009833 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1341692009834 putative catalytic cysteine [active] 1341692009835 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 1341692009836 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1341692009837 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1341692009838 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1341692009839 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 1341692009840 Hexamer interface [polypeptide binding]; other site 1341692009841 Putative hexagonal pore residue; other site 1341692009842 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1341692009843 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 1341692009844 Hexamer interface [polypeptide binding]; other site 1341692009845 Putative hexagonal pore residue; other site 1341692009846 recombination factor protein RarA; Reviewed; Region: PRK13342 1341692009847 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 1341692009848 Walker A motif; other site 1341692009849 ATP binding site [chemical binding]; other site 1341692009850 Walker B motif; other site 1341692009851 arginine finger; other site 1341692009852 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1341692009853 Transcriptional regulator; Region: Rrf2; cl17282 1341692009854 Rrf2 family protein; Region: rrf2_super; TIGR00738 1341692009855 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1341692009856 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1341692009857 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1341692009858 catalytic residue [active] 1341692009859 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1341692009860 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1341692009861 trimerization site [polypeptide binding]; other site 1341692009862 active site 1341692009863 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 1341692009864 PRC-barrel domain; Region: PRC; pfam05239 1341692009865 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1341692009866 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1341692009867 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1341692009868 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 1341692009869 motif 1; other site 1341692009870 active site 1341692009871 motif 2; other site 1341692009872 motif 3; other site 1341692009873 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1341692009874 hypothetical protein; Provisional; Region: PRK05473 1341692009875 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1341692009876 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 1341692009877 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1341692009878 metal binding site 2 [ion binding]; metal-binding site 1341692009879 putative DNA binding helix; other site 1341692009880 metal binding site 1 [ion binding]; metal-binding site 1341692009881 dimer interface [polypeptide binding]; other site 1341692009882 structural Zn2+ binding site [ion binding]; other site 1341692009883 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1341692009884 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1341692009885 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1341692009886 hypothetical protein; Provisional; Region: PRK13676 1341692009887 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1341692009888 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1341692009889 G1 box; other site 1341692009890 putative GEF interaction site [polypeptide binding]; other site 1341692009891 GTP/Mg2+ binding site [chemical binding]; other site 1341692009892 Switch I region; other site 1341692009893 G2 box; other site 1341692009894 G3 box; other site 1341692009895 Switch II region; other site 1341692009896 G4 box; other site 1341692009897 G5 box; other site 1341692009898 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 1341692009899 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 1341692009900 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1341692009901 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 1341692009902 S-adenosylmethionine binding site [chemical binding]; other site 1341692009903 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1341692009904 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 1341692009905 Peptidase family U32; Region: Peptidase_U32; pfam01136 1341692009906 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1341692009907 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1341692009908 sporulation sigma factor SigK; Reviewed; Region: PRK05803 1341692009909 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692009910 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 1341692009911 DNA binding residues [nucleotide binding] 1341692009912 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1341692009913 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 1341692009914 Walker A motif; other site 1341692009915 ATP binding site [chemical binding]; other site 1341692009916 Walker B motif; other site 1341692009917 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1341692009918 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 1341692009919 DXD motif; other site 1341692009920 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1341692009921 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1341692009922 nucleotide binding site [chemical binding]; other site 1341692009923 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 1341692009924 Cell division protein FtsA; Region: FtsA; pfam14450 1341692009925 cell division protein FtsZ; Validated; Region: PRK09330 1341692009926 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 1341692009927 nucleotide binding site [chemical binding]; other site 1341692009928 SulA interaction site; other site 1341692009929 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 1341692009930 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 1341692009931 sporulation sigma factor SigE; Reviewed; Region: PRK08301 1341692009932 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692009933 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 1341692009934 DNA binding residues [nucleotide binding] 1341692009935 sporulation sigma factor SigG; Reviewed; Region: PRK08215 1341692009936 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692009937 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1341692009938 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 1341692009939 DNA binding residues [nucleotide binding] 1341692009940 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 1341692009941 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1341692009942 ATP cone domain; Region: ATP-cone; pfam03477 1341692009943 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1341692009944 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1341692009945 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692009946 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 1341692009947 active site 1341692009948 phosphorylation site [posttranslational modification] 1341692009949 intermolecular recognition site; other site 1341692009950 dimerization interface [polypeptide binding]; other site 1341692009951 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 1341692009952 DNA binding site [nucleotide binding] 1341692009953 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 1341692009954 dimerization interface [polypeptide binding]; other site 1341692009955 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1341692009956 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 1341692009957 dimer interface [polypeptide binding]; other site 1341692009958 phosphorylation site [posttranslational modification] 1341692009959 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 1341692009960 ATP binding site [chemical binding]; other site 1341692009961 Mg2+ binding site [ion binding]; other site 1341692009962 G-X-G motif; other site 1341692009963 PBP superfamily domain; Region: PBP_like_2; cl17296 1341692009964 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1341692009965 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 1341692009966 dimer interface [polypeptide binding]; other site 1341692009967 conserved gate region; other site 1341692009968 putative PBP binding loops; other site 1341692009969 ABC-ATPase subunit interface; other site 1341692009970 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1341692009971 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 1341692009972 dimer interface [polypeptide binding]; other site 1341692009973 conserved gate region; other site 1341692009974 putative PBP binding loops; other site 1341692009975 ABC-ATPase subunit interface; other site 1341692009976 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 1341692009977 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1341692009978 Walker A/P-loop; other site 1341692009979 ATP binding site [chemical binding]; other site 1341692009980 Q-loop/lid; other site 1341692009981 ABC transporter signature motif; other site 1341692009982 Walker B; other site 1341692009983 D-loop; other site 1341692009984 H-loop/switch region; other site 1341692009985 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1341692009986 PhoU domain; Region: PhoU; pfam01895 1341692009987 PhoU domain; Region: PhoU; pfam01895 1341692009988 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1341692009989 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1341692009990 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 1341692009991 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 1341692009992 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 1341692009993 FeS/SAM binding site; other site 1341692009994 Protein of unknown function (DUF512); Region: DUF512; pfam04459 1341692009995 GTP-binding protein Der; Reviewed; Region: PRK00093 1341692009996 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1341692009997 G1 box; other site 1341692009998 GTP/Mg2+ binding site [chemical binding]; other site 1341692009999 Switch I region; other site 1341692010000 G2 box; other site 1341692010001 Switch II region; other site 1341692010002 G3 box; other site 1341692010003 G4 box; other site 1341692010004 G5 box; other site 1341692010005 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1341692010006 G1 box; other site 1341692010007 GTP/Mg2+ binding site [chemical binding]; other site 1341692010008 Switch I region; other site 1341692010009 G2 box; other site 1341692010010 G3 box; other site 1341692010011 Switch II region; other site 1341692010012 G4 box; other site 1341692010013 G5 box; other site 1341692010014 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1341692010015 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1341692010016 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1341692010017 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 1341692010018 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 1341692010019 hypothetical protein; Provisional; Region: PRK11820 1341692010020 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1341692010021 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1341692010022 hypothetical protein; Provisional; Region: PRK04323 1341692010023 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1341692010024 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 1341692010025 catalytic site [active] 1341692010026 G-X2-G-X-G-K; other site 1341692010027 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1341692010028 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1341692010029 Flavoprotein; Region: Flavoprotein; pfam02441 1341692010030 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1341692010031 primosome assembly protein PriA; Validated; Region: PRK05580 1341692010032 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 1341692010033 ATP binding site [chemical binding]; other site 1341692010034 putative Mg++ binding site [ion binding]; other site 1341692010035 FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1; Region: FYVE; cl17764 1341692010036 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1341692010037 ATP-binding site [chemical binding]; other site 1341692010038 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 1341692010039 active site 1341692010040 catalytic residues [active] 1341692010041 metal binding site [ion binding]; metal-binding site 1341692010042 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1341692010043 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1341692010044 putative active site [active] 1341692010045 substrate binding site [chemical binding]; other site 1341692010046 putative cosubstrate binding site; other site 1341692010047 catalytic site [active] 1341692010048 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1341692010049 substrate binding site [chemical binding]; other site 1341692010050 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 1341692010051 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1341692010052 NusB family; Region: NusB; pfam01029 1341692010053 putative RNA binding site [nucleotide binding]; other site 1341692010054 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1341692010055 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 1341692010056 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 1341692010057 FeS/SAM binding site; other site 1341692010058 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 1341692010059 active site 1341692010060 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1341692010061 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1341692010062 active site 1341692010063 ATP binding site [chemical binding]; other site 1341692010064 substrate binding site [chemical binding]; other site 1341692010065 activation loop (A-loop); other site 1341692010066 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 1341692010067 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 1341692010068 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 1341692010069 GTPase RsgA; Reviewed; Region: PRK00098 1341692010070 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 1341692010071 RNA binding site [nucleotide binding]; other site 1341692010072 homodimer interface [polypeptide binding]; other site 1341692010073 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1341692010074 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1341692010075 GTP/Mg2+ binding site [chemical binding]; other site 1341692010076 G4 box; other site 1341692010077 G5 box; other site 1341692010078 G1 box; other site 1341692010079 Switch I region; other site 1341692010080 G2 box; other site 1341692010081 G3 box; other site 1341692010082 Switch II region; other site 1341692010083 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1341692010084 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 1341692010085 substrate binding site [chemical binding]; other site 1341692010086 hexamer interface [polypeptide binding]; other site 1341692010087 metal binding site [ion binding]; metal-binding site 1341692010088 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1341692010089 Thiamine pyrophosphokinase; Region: TPK; cd07995 1341692010090 active site 1341692010091 dimerization interface [polypeptide binding]; other site 1341692010092 thiamine binding site [chemical binding]; other site 1341692010093 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1341692010094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1341692010095 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1341692010096 DAK2 domain; Region: Dak2; pfam02734 1341692010097 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1341692010098 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 1341692010099 ssDNA binding site; other site 1341692010100 generic binding surface II; other site 1341692010101 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 1341692010102 ATP binding site [chemical binding]; other site 1341692010103 putative Mg++ binding site [ion binding]; other site 1341692010104 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 1341692010105 nucleotide binding region [chemical binding]; other site 1341692010106 ATP-binding site [chemical binding]; other site 1341692010107 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1341692010108 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 1341692010109 S-adenosylmethionine binding site [chemical binding]; other site 1341692010110 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1341692010111 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1341692010112 active site 1341692010113 (T/H)XGH motif; other site 1341692010114 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 1341692010115 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 1341692010116 hypothetical protein; Provisional; Region: PRK13670 1341692010117 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 1341692010118 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1341692010119 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1341692010120 propionate/acetate kinase; Provisional; Region: PRK12379 1341692010121 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1341692010122 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1341692010123 putative phosphate acyltransferase; Provisional; Region: PRK05331 1341692010124 acyl carrier protein; Provisional; Region: acpP; PRK00982 1341692010125 ribonuclease III; Reviewed; Region: rnc; PRK00102 1341692010126 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 1341692010127 dimerization interface [polypeptide binding]; other site 1341692010128 active site 1341692010129 metal binding site [ion binding]; metal-binding site 1341692010130 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 1341692010131 dsRNA binding site [nucleotide binding]; other site 1341692010132 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 1341692010133 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1341692010134 FeS/SAM binding site; other site 1341692010135 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1341692010136 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1341692010137 Walker A/P-loop; other site 1341692010138 ATP binding site [chemical binding]; other site 1341692010139 Q-loop/lid; other site 1341692010140 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1341692010141 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1341692010142 ABC transporter signature motif; other site 1341692010143 Walker B; other site 1341692010144 D-loop; other site 1341692010145 H-loop/switch region; other site 1341692010146 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1341692010147 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 1341692010148 P loop; other site 1341692010149 GTP binding site [chemical binding]; other site 1341692010150 putative DNA-binding protein; Validated; Region: PRK00118 1341692010151 signal recognition particle protein; Provisional; Region: PRK10867 1341692010152 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1341692010153 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 1341692010154 P loop; other site 1341692010155 GTP binding site [chemical binding]; other site 1341692010156 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1341692010157 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1341692010158 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1341692010159 hypothetical protein; Provisional; Region: PRK00468 1341692010160 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1341692010161 RimM N-terminal domain; Region: RimM; pfam01782 1341692010162 PRC-barrel domain; Region: PRC; pfam05239 1341692010163 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1341692010164 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1341692010165 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1341692010166 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 1341692010167 Catalytic site [active] 1341692010168 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1341692010169 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1341692010170 GTP/Mg2+ binding site [chemical binding]; other site 1341692010171 G4 box; other site 1341692010172 G5 box; other site 1341692010173 G1 box; other site 1341692010174 Switch I region; other site 1341692010175 G2 box; other site 1341692010176 G3 box; other site 1341692010177 Switch II region; other site 1341692010178 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1341692010179 RNA/DNA hybrid binding site [nucleotide binding]; other site 1341692010180 active site 1341692010181 hypothetical protein; Reviewed; Region: PRK12497 1341692010182 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1341692010183 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1341692010184 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 1341692010185 Walker A motif; other site 1341692010186 ATP binding site [chemical binding]; other site 1341692010187 Walker B motif; other site 1341692010188 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1341692010189 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1341692010190 DNA protecting protein DprA; Region: dprA; TIGR00732 1341692010191 DNA topoisomerase I; Validated; Region: PRK05582 1341692010192 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 1341692010193 active site 1341692010194 interdomain interaction site; other site 1341692010195 putative metal-binding site [ion binding]; other site 1341692010196 nucleotide binding site [chemical binding]; other site 1341692010197 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 1341692010198 domain I; other site 1341692010199 DNA binding groove [nucleotide binding] 1341692010200 phosphate binding site [ion binding]; other site 1341692010201 domain II; other site 1341692010202 domain III; other site 1341692010203 nucleotide binding site [chemical binding]; other site 1341692010204 catalytic site [active] 1341692010205 domain IV; other site 1341692010206 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1341692010207 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1341692010208 transcriptional repressor CodY; Validated; Region: PRK04158 1341692010209 CodY GAF-like domain; Region: CodY; pfam06018 1341692010210 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 1341692010211 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 1341692010212 rRNA interaction site [nucleotide binding]; other site 1341692010213 S8 interaction site; other site 1341692010214 putative laminin-1 binding site; other site 1341692010215 elongation factor Ts; Provisional; Region: tsf; PRK09377 1341692010216 UBA/TS-N domain; Region: UBA; pfam00627 1341692010217 Elongation factor TS; Region: EF_TS; pfam00889 1341692010218 Elongation factor TS; Region: EF_TS; pfam00889 1341692010219 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 1341692010220 putative nucleotide binding site [chemical binding]; other site 1341692010221 uridine monophosphate binding site [chemical binding]; other site 1341692010222 homohexameric interface [polypeptide binding]; other site 1341692010223 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1341692010224 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 1341692010225 hinge region; other site 1341692010226 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 1341692010227 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1341692010228 catalytic residue [active] 1341692010229 putative FPP diphosphate binding site; other site 1341692010230 putative FPP binding hydrophobic cleft; other site 1341692010231 dimer interface [polypeptide binding]; other site 1341692010232 putative IPP diphosphate binding site; other site 1341692010233 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1341692010234 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1341692010235 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1341692010236 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1341692010237 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1341692010238 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1341692010239 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1341692010240 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 1341692010241 active site 1341692010242 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 1341692010243 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 1341692010244 putative substrate binding region [chemical binding]; other site 1341692010245 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1341692010246 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1341692010247 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1341692010248 Sm and related proteins; Region: Sm_like; cl00259 1341692010249 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1341692010250 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1341692010251 putative oligomer interface [polypeptide binding]; other site 1341692010252 putative RNA binding site [nucleotide binding]; other site 1341692010253 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1341692010254 NusA N-terminal domain; Region: NusA_N; pfam08529 1341692010255 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 1341692010256 RNA binding site [nucleotide binding]; other site 1341692010257 homodimer interface [polypeptide binding]; other site 1341692010258 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 1341692010259 G-X-X-G motif; other site 1341692010260 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 1341692010261 G-X-X-G motif; other site 1341692010262 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 1341692010263 putative RNA binding cleft [nucleotide binding]; other site 1341692010264 ribosomal protein L7Ae family protein; Provisional; Region: PRK05583 1341692010265 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1341692010266 translation initiation factor IF-2; Region: IF-2; TIGR00487 1341692010267 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1341692010268 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1341692010269 G1 box; other site 1341692010270 putative GEF interaction site [polypeptide binding]; other site 1341692010271 GTP/Mg2+ binding site [chemical binding]; other site 1341692010272 Switch I region; other site 1341692010273 G2 box; other site 1341692010274 G3 box; other site 1341692010275 Switch II region; other site 1341692010276 G4 box; other site 1341692010277 G5 box; other site 1341692010278 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 1341692010279 Translation-initiation factor 2; Region: IF-2; pfam11987 1341692010280 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 1341692010281 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1341692010282 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1341692010283 DHH family; Region: DHH; pfam01368 1341692010284 DHHA1 domain; Region: DHHA1; pfam02272 1341692010285 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 1341692010286 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1341692010287 RNA binding site [nucleotide binding]; other site 1341692010288 active site 1341692010289 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1341692010290 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1341692010291 active site 1341692010292 Riboflavin kinase; Region: Flavokinase; pfam01687 1341692010293 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 1341692010294 16S/18S rRNA binding site [nucleotide binding]; other site 1341692010295 S13e-L30e interaction site [polypeptide binding]; other site 1341692010296 25S rRNA binding site [nucleotide binding]; other site 1341692010297 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1341692010298 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1341692010299 RNase E interface [polypeptide binding]; other site 1341692010300 trimer interface [polypeptide binding]; other site 1341692010301 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1341692010302 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1341692010303 RNase E interface [polypeptide binding]; other site 1341692010304 trimer interface [polypeptide binding]; other site 1341692010305 active site 1341692010306 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 1341692010307 putative nucleic acid binding region [nucleotide binding]; other site 1341692010308 G-X-X-G motif; other site 1341692010309 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 1341692010310 RNA binding site [nucleotide binding]; other site 1341692010311 domain interface; other site 1341692010312 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1341692010313 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1341692010314 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1341692010315 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 1341692010316 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1341692010317 Clp protease; Region: CLP_protease; pfam00574 1341692010318 active site 1341692010319 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1341692010320 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1341692010321 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1341692010322 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1341692010323 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 1341692010324 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1341692010325 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 1341692010326 FeS/SAM binding site; other site 1341692010327 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1341692010328 recombinase A; Provisional; Region: recA; PRK09354 1341692010329 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 1341692010330 hexamer interface [polypeptide binding]; other site 1341692010331 Walker A motif; other site 1341692010332 ATP binding site [chemical binding]; other site 1341692010333 Walker B motif; other site 1341692010334 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 1341692010335 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1341692010336 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692010337 Zn2+ binding site [ion binding]; other site 1341692010338 Mg2+ binding site [ion binding]; other site 1341692010339 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 1341692010340 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 1341692010341 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 1341692010342 aspartate aminotransferase; Provisional; Region: PRK05764 1341692010343 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 1341692010344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692010345 homodimer interface [polypeptide binding]; other site 1341692010346 catalytic residue [active] 1341692010347 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1341692010348 dimerization domain swap beta strand [polypeptide binding]; other site 1341692010349 regulatory protein interface [polypeptide binding]; other site 1341692010350 active site 1341692010351 regulatory phosphorylation site [posttranslational modification]; other site 1341692010352 Domain of unknown function (DUF378); Region: DUF378; pfam04070 1341692010353 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1341692010354 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 1341692010355 tetramer interface [polypeptide binding]; other site 1341692010356 active site 1341692010357 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1341692010358 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1341692010359 active site 1341692010360 HIGH motif; other site 1341692010361 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1341692010362 active site 1341692010363 KMSKS motif; other site 1341692010364 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 1341692010365 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1341692010366 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1341692010367 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1341692010368 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1341692010369 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1341692010370 putative active site [active] 1341692010371 putative CoA binding site [chemical binding]; other site 1341692010372 nudix motif; other site 1341692010373 metal binding site [ion binding]; metal-binding site 1341692010374 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1341692010375 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 1341692010376 active site 1341692010377 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 1341692010378 thiamine phosphate binding site [chemical binding]; other site 1341692010379 active site 1341692010380 pyrophosphate binding site [ion binding]; other site 1341692010381 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1341692010382 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 1341692010383 active site 1341692010384 phosphorylation site [posttranslational modification] 1341692010385 intermolecular recognition site; other site 1341692010386 dimerization interface [polypeptide binding]; other site 1341692010387 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 1341692010388 Cache domain; Region: Cache_1; pfam02743 1341692010389 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1341692010390 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 1341692010391 dimerization interface [polypeptide binding]; other site 1341692010392 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692010393 dimer interface [polypeptide binding]; other site 1341692010394 putative CheW interface [polypeptide binding]; other site 1341692010395 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1341692010396 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 1341692010397 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1341692010398 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1341692010399 active site 1341692010400 catalytic residues [active] 1341692010401 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1341692010402 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 1341692010403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 1341692010404 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1341692010405 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 1341692010406 putative substrate translocation pore; other site 1341692010407 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1341692010408 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1341692010409 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692010410 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692010411 Penicillinase repressor; Region: Pencillinase_R; cl17580 1341692010412 RNA polymerase factor sigma-70; Validated; Region: PRK06811 1341692010413 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692010414 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1341692010415 DNA binding residues [nucleotide binding] 1341692010416 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 1341692010417 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1341692010418 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1341692010419 Bacterial transcriptional regulator; Region: IclR; pfam01614 1341692010420 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1341692010421 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1341692010422 active site 1341692010423 intersubunit interface [polypeptide binding]; other site 1341692010424 catalytic residue [active] 1341692010425 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 1341692010426 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 1341692010427 putative substrate translocation pore; other site 1341692010428 AAA domain; Region: AAA_33; pfam13671 1341692010429 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1341692010430 active site 1341692010431 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 1341692010432 active site 1341692010433 catalytic residues [active] 1341692010434 metal binding site [ion binding]; metal-binding site 1341692010435 hypothetical protein; Provisional; Region: PRK03881 1341692010436 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 1341692010437 AMMECR1; Region: AMMECR1; pfam01871 1341692010438 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 1341692010439 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 1341692010440 FeS/SAM binding site; other site 1341692010441 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1341692010442 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 1341692010443 sequence-specific DNA binding site [nucleotide binding]; other site 1341692010444 salt bridge; other site 1341692010445 Cupin domain; Region: Cupin_2; pfam07883 1341692010446 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1341692010447 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1341692010448 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1341692010449 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 1341692010450 non-specific DNA binding site [nucleotide binding]; other site 1341692010451 salt bridge; other site 1341692010452 sequence-specific DNA binding site [nucleotide binding]; other site 1341692010453 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1341692010454 macrophage migration inhibitory factor-like protein; Provisional; Region: PTZ00450 1341692010455 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1341692010456 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 1341692010457 ArsC family; Region: ArsC; pfam03960 1341692010458 catalytic residue [active] 1341692010459 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1341692010460 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1341692010461 Cache domain; Region: Cache_1; pfam02743 1341692010462 HAMP domain; Region: HAMP; pfam00672 1341692010463 dimerization interface [polypeptide binding]; other site 1341692010464 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692010465 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692010466 dimer interface [polypeptide binding]; other site 1341692010467 putative CheW interface [polypeptide binding]; other site 1341692010468 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692010469 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 1341692010470 dimer interface [polypeptide binding]; other site 1341692010471 phosphorylation site [posttranslational modification] 1341692010472 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 1341692010473 ATP binding site [chemical binding]; other site 1341692010474 Mg2+ binding site [ion binding]; other site 1341692010475 G-X-G motif; other site 1341692010476 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 1341692010477 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692010478 active site 1341692010479 phosphorylation site [posttranslational modification] 1341692010480 intermolecular recognition site; other site 1341692010481 dimerization interface [polypeptide binding]; other site 1341692010482 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 1341692010483 DNA binding site [nucleotide binding] 1341692010484 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1341692010485 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 1341692010486 Walker A/P-loop; other site 1341692010487 ATP binding site [chemical binding]; other site 1341692010488 Q-loop/lid; other site 1341692010489 ABC transporter signature motif; other site 1341692010490 Walker B; other site 1341692010491 D-loop; other site 1341692010492 H-loop/switch region; other site 1341692010493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 1341692010494 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692010495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 1341692010496 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692010497 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1341692010498 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 1341692010499 active site 1341692010500 phosphorylation site [posttranslational modification] 1341692010501 intermolecular recognition site; other site 1341692010502 dimerization interface [polypeptide binding]; other site 1341692010503 LytTr DNA-binding domain; Region: LytTR; smart00850 1341692010504 Cache domain; Region: Cache_1; pfam02743 1341692010505 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692010506 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692010507 dimer interface [polypeptide binding]; other site 1341692010508 putative CheW interface [polypeptide binding]; other site 1341692010509 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1341692010510 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692010511 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692010512 dimer interface [polypeptide binding]; other site 1341692010513 putative CheW interface [polypeptide binding]; other site 1341692010514 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1341692010515 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 1341692010516 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1341692010517 Na binding site [ion binding]; other site 1341692010518 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1341692010519 Ligand binding site [chemical binding]; other site 1341692010520 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1341692010521 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1341692010522 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1341692010523 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1341692010524 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1341692010525 FAD binding domain; Region: FAD_binding_4; pfam01565 1341692010526 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1341692010527 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692010528 DNA-binding site [nucleotide binding]; DNA binding site 1341692010529 FCD domain; Region: FCD; pfam07729 1341692010530 OPT oligopeptide transporter protein; Region: OPT; cl14607 1341692010531 OPT oligopeptide transporter protein; Region: OPT; cl14607 1341692010532 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1341692010533 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1341692010534 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1341692010535 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1341692010536 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1341692010537 G1 box; other site 1341692010538 GTP/Mg2+ binding site [chemical binding]; other site 1341692010539 Switch I region; other site 1341692010540 G2 box; other site 1341692010541 G3 box; other site 1341692010542 Switch II region; other site 1341692010543 G4 box; other site 1341692010544 G5 box; other site 1341692010545 Nucleoside recognition; Region: Gate; pfam07670 1341692010546 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1341692010547 Nucleoside recognition; Region: Gate; pfam07670 1341692010548 CRISPR/Cas system-associated transcriptional regulator CasRa; Region: CasRa_I-A; cd09655 1341692010549 flavodoxin; Provisional; Region: PRK05568 1341692010550 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1341692010551 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 1341692010552 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 1341692010553 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 1341692010554 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 1341692010555 salt bridge; other site 1341692010556 non-specific DNA binding site [nucleotide binding]; other site 1341692010557 sequence-specific DNA binding site [nucleotide binding]; other site 1341692010558 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 1341692010559 B12 binding site [chemical binding]; other site 1341692010560 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1341692010561 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692010562 ABC transporter signature motif; other site 1341692010563 Walker B; other site 1341692010564 D-loop; other site 1341692010565 H-loop/switch region; other site 1341692010566 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 1341692010567 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1341692010568 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1341692010569 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1341692010570 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1341692010571 HAMP domain; Region: HAMP; pfam00672 1341692010572 dimerization interface [polypeptide binding]; other site 1341692010573 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692010574 dimer interface [polypeptide binding]; other site 1341692010575 putative CheW interface [polypeptide binding]; other site 1341692010576 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1341692010577 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1341692010578 DNA binding residues [nucleotide binding] 1341692010579 dimer interface [polypeptide binding]; other site 1341692010580 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692010581 MarR family; Region: MarR; pfam01047 1341692010582 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 1341692010583 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1341692010584 putative substrate translocation pore; other site 1341692010585 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1341692010586 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 1341692010587 ligand binding site [chemical binding]; other site 1341692010588 flexible hinge region; other site 1341692010589 short chain dehydrogenase; Provisional; Region: PRK06914 1341692010590 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1341692010591 NADP binding site [chemical binding]; other site 1341692010592 active site 1341692010593 steroid binding site; other site 1341692010594 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692010595 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 1341692010596 active site 1341692010597 phosphorylation site [posttranslational modification] 1341692010598 intermolecular recognition site; other site 1341692010599 dimerization interface [polypeptide binding]; other site 1341692010600 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 1341692010601 DNA binding site [nucleotide binding] 1341692010602 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692010603 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 1341692010604 ATP binding site [chemical binding]; other site 1341692010605 Mg2+ binding site [ion binding]; other site 1341692010606 G-X-G motif; other site 1341692010607 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1341692010608 putative efflux protein, MATE family; Region: matE; TIGR00797 1341692010609 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1341692010610 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1341692010611 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1341692010612 DNA binding residues [nucleotide binding] 1341692010613 putative dimer interface [polypeptide binding]; other site 1341692010614 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1341692010615 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1341692010616 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1341692010617 active site 1341692010618 metal binding site [ion binding]; metal-binding site 1341692010619 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692010620 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1341692010621 Walker A/P-loop; other site 1341692010622 ATP binding site [chemical binding]; other site 1341692010623 Q-loop/lid; other site 1341692010624 ABC transporter signature motif; other site 1341692010625 Walker B; other site 1341692010626 D-loop; other site 1341692010627 H-loop/switch region; other site 1341692010628 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1341692010629 FtsX-like permease family; Region: FtsX; pfam02687 1341692010630 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 1341692010631 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1341692010632 putative substrate translocation pore; other site 1341692010633 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 1341692010634 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1341692010635 putative substrate translocation pore; other site 1341692010636 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 1341692010637 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 1341692010638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692010639 homodimer interface [polypeptide binding]; other site 1341692010640 catalytic residue [active] 1341692010641 FtsX-like permease family; Region: FtsX; pfam02687 1341692010642 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1341692010643 FtsX-like permease family; Region: FtsX; pfam02687 1341692010644 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692010645 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1341692010646 Walker A/P-loop; other site 1341692010647 ATP binding site [chemical binding]; other site 1341692010648 Q-loop/lid; other site 1341692010649 ABC transporter signature motif; other site 1341692010650 Walker B; other site 1341692010651 D-loop; other site 1341692010652 H-loop/switch region; other site 1341692010653 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692010654 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 1341692010655 active site 1341692010656 phosphorylation site [posttranslational modification] 1341692010657 intermolecular recognition site; other site 1341692010658 dimerization interface [polypeptide binding]; other site 1341692010659 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 1341692010660 DNA binding site [nucleotide binding] 1341692010661 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692010662 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 1341692010663 ATP binding site [chemical binding]; other site 1341692010664 Mg2+ binding site [ion binding]; other site 1341692010665 G-X-G motif; other site 1341692010666 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692010667 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1341692010668 Walker A/P-loop; other site 1341692010669 ATP binding site [chemical binding]; other site 1341692010670 Q-loop/lid; other site 1341692010671 ABC transporter signature motif; other site 1341692010672 Walker B; other site 1341692010673 D-loop; other site 1341692010674 H-loop/switch region; other site 1341692010675 FtsX-like permease family; Region: FtsX; pfam02687 1341692010676 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1341692010677 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1341692010678 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1341692010679 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 1341692010680 PLD-like domain; Region: PLDc_2; pfam13091 1341692010681 putative homodimer interface [polypeptide binding]; other site 1341692010682 putative active site [active] 1341692010683 catalytic site [active] 1341692010684 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1341692010685 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 1341692010686 ATP binding site [chemical binding]; other site 1341692010687 putative Mg++ binding site [ion binding]; other site 1341692010688 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 1341692010689 nucleotide binding region [chemical binding]; other site 1341692010690 ATP-binding site [chemical binding]; other site 1341692010691 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 1341692010692 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1341692010693 active site 1341692010694 8-oxo-dGMP binding site [chemical binding]; other site 1341692010695 nudix motif; other site 1341692010696 metal binding site [ion binding]; metal-binding site 1341692010697 AAA domain; Region: AAA_21; pfam13304 1341692010698 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1341692010699 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 1341692010700 P-loop; other site 1341692010701 Magnesium ion binding site [ion binding]; other site 1341692010702 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 1341692010703 Magnesium ion binding site [ion binding]; other site 1341692010704 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 1341692010705 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 1341692010706 Protein of unknown function (DUF524); Region: DUF524; pfam04411 1341692010707 Protein of unknown function (DUF524); Region: DUF524; pfam04411 1341692010708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1341692010709 Possible plasma membrane-binding motif in junctophilins, PIP-5-kinases and protein kinases; Region: MORN; smart00698 1341692010710 His-Xaa-Ser system protein HsxD; Region: chp_LLNDYxLRE; TIGR03976 1341692010711 His-Xaa-Ser system protein HsxD; Region: chp_LLNDYxLRE; TIGR03976 1341692010712 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 1341692010713 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 1341692010714 FeS/SAM binding site; other site 1341692010715 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 1341692010716 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 1341692010717 FeS/SAM binding site; other site 1341692010718 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1341692010719 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1341692010720 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1341692010721 active site 1341692010722 metal binding site [ion binding]; metal-binding site 1341692010723 DNA binding site [nucleotide binding] 1341692010724 Uncharacterized conserved protein [Function unknown]; Region: COG4717 1341692010725 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 1341692010726 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 1341692010727 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1341692010728 active site 1341692010729 8-oxo-dGMP binding site [chemical binding]; other site 1341692010730 nudix motif; other site 1341692010731 metal binding site [ion binding]; metal-binding site 1341692010732 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 1341692010733 PLD-like domain; Region: PLDc_2; pfam13091 1341692010734 putative homodimer interface [polypeptide binding]; other site 1341692010735 putative active site [active] 1341692010736 catalytic site [active] 1341692010737 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1341692010738 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 1341692010739 ATP binding site [chemical binding]; other site 1341692010740 putative Mg++ binding site [ion binding]; other site 1341692010741 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 1341692010742 nucleotide binding region [chemical binding]; other site 1341692010743 ATP-binding site [chemical binding]; other site 1341692010744 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 1341692010745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 1341692010746 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 1341692010747 catalytic nucleophile [active] 1341692010748 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 1341692010749 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 1341692010750 salt bridge; other site 1341692010751 non-specific DNA binding site [nucleotide binding]; other site 1341692010752 sequence-specific DNA binding site [nucleotide binding]; other site 1341692010753 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 1341692010754 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 1341692010755 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; cl02542 1341692010756 HSP70 interaction site [polypeptide binding]; other site 1341692010757 HIRAN domain; Region: HIRAN; pfam08797 1341692010758 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 1341692010759 nucleotide binding site/active site [active] 1341692010760 HIT family signature motif; other site 1341692010761 catalytic residue [active] 1341692010762 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b3; cd09205 1341692010763 PLD-like domain; Region: PLDc_2; pfam13091 1341692010764 putative homodimer interface [polypeptide binding]; other site 1341692010765 putative active site [active] 1341692010766 catalytic site [active] 1341692010767 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1341692010768 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 1341692010769 ATP binding site [chemical binding]; other site 1341692010770 putative Mg++ binding site [ion binding]; other site 1341692010771 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 1341692010772 nucleotide binding region [chemical binding]; other site 1341692010773 ATP-binding site [chemical binding]; other site 1341692010774 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 1341692010775 metal binding site [ion binding]; metal-binding site 1341692010776 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 1341692010777 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 1341692010778 Protein of unknown function (DUF524); Region: DUF524; pfam04411 1341692010779 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1341692010780 Immunity protein Imm6; Region: Imm6; pfam14434 1341692010781 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1341692010782 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692010783 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692010784 metal binding site [ion binding]; metal-binding site 1341692010785 active site 1341692010786 I-site; other site 1341692010787 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 1341692010788 SWIM zinc finger; Region: SWIM; pfam04434 1341692010789 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1341692010790 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1341692010791 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 1341692010792 ATP binding site [chemical binding]; other site 1341692010793 putative Mg++ binding site [ion binding]; other site 1341692010794 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 1341692010795 nucleotide binding region [chemical binding]; other site 1341692010796 ATP-binding site [chemical binding]; other site 1341692010797 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 1341692010798 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1341692010799 VanW like protein; Region: VanW; pfam04294 1341692010800 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 1341692010801 non-specific DNA binding site [nucleotide binding]; other site 1341692010802 salt bridge; other site 1341692010803 sequence-specific DNA binding site [nucleotide binding]; other site 1341692010804 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 1341692010805 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 1341692010806 catalytic loop [active] 1341692010807 iron binding site [ion binding]; other site 1341692010808 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1341692010809 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1341692010810 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1341692010811 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1341692010812 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 1341692010813 dimer interface [polypeptide binding]; other site 1341692010814 [2Fe-2S] cluster binding site [ion binding]; other site 1341692010815 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1341692010816 SLBB domain; Region: SLBB; pfam10531 1341692010817 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1341692010818 4Fe-4S binding domain; Region: Fer4; pfam00037 1341692010819 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1341692010820 4Fe-4S binding domain; Region: Fer4; pfam00037 1341692010821 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1341692010822 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 1341692010823 putative dimer interface [polypeptide binding]; other site 1341692010824 [2Fe-2S] cluster binding site [ion binding]; other site 1341692010825 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692010826 MarR family; Region: MarR_2; pfam12802 1341692010827 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1341692010828 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1341692010829 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1341692010830 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1341692010831 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1341692010832 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692010833 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 1341692010834 ATP binding site [chemical binding]; other site 1341692010835 Mg2+ binding site [ion binding]; other site 1341692010836 G-X-G motif; other site 1341692010837 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 1341692010838 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 1341692010839 active site 1341692010840 phosphorylation site [posttranslational modification] 1341692010841 intermolecular recognition site; other site 1341692010842 dimerization interface [polypeptide binding]; other site 1341692010843 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1341692010844 NHL repeat; Region: NHL; pfam01436 1341692010845 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1341692010846 NHL repeat; Region: NHL; pfam01436 1341692010847 NHL repeat; Region: NHL; pfam01436 1341692010848 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 1341692010849 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692010850 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692010851 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692010852 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1341692010853 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1341692010854 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 1341692010855 active site 1341692010856 DNA binding site [nucleotide binding] 1341692010857 Int/Topo IB signature motif; other site 1341692010858 PAS fold; Region: PAS_3; pfam08447 1341692010859 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692010860 metal binding site [ion binding]; metal-binding site 1341692010861 active site 1341692010862 I-site; other site 1341692010863 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 1341692010864 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1341692010865 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 1341692010866 dimerization interface [polypeptide binding]; other site 1341692010867 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692010868 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692010869 dimer interface [polypeptide binding]; other site 1341692010870 putative CheW interface [polypeptide binding]; other site 1341692010871 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 1341692010872 D-galactonate transporter; Region: 2A0114; TIGR00893 1341692010873 putative substrate translocation pore; other site 1341692010874 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1341692010875 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 1341692010876 putative DNA binding site [nucleotide binding]; other site 1341692010877 putative Zn2+ binding site [ion binding]; other site 1341692010878 Bacterial transcriptional regulator; Region: IclR; pfam01614 1341692010879 hypothetical protein; Provisional; Region: PRK04262 1341692010880 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1341692010881 dimer interface [polypeptide binding]; other site 1341692010882 active site 1341692010883 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 1341692010884 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1341692010885 active site 1341692010886 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 1341692010887 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1341692010888 DUF35 OB-fold domain; Region: DUF35; pfam01796 1341692010889 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 1341692010890 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1341692010891 putative substrate translocation pore; other site 1341692010892 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 1341692010893 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1341692010894 putative substrate translocation pore; other site 1341692010895 MORN repeat; Region: MORN; cl14787 1341692010896 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1341692010897 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 1341692010898 substrate binding pocket [chemical binding]; other site 1341692010899 membrane-bound complex binding site; other site 1341692010900 PAS fold; Region: PAS_4; pfam08448 1341692010901 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1341692010902 putative active site [active] 1341692010903 heme pocket [chemical binding]; other site 1341692010904 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692010905 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692010906 metal binding site [ion binding]; metal-binding site 1341692010907 active site 1341692010908 I-site; other site 1341692010909 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692010910 Zn2+ binding site [ion binding]; other site 1341692010911 Mg2+ binding site [ion binding]; other site 1341692010912 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 1341692010913 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3861 1341692010914 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1341692010915 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1341692010916 DNA binding residues [nucleotide binding] 1341692010917 dimer interface [polypeptide binding]; other site 1341692010918 Predicted transcriptional regulators [Transcription]; Region: COG1733 1341692010919 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 1341692010920 dimerization interface [polypeptide binding]; other site 1341692010921 putative Zn2+ binding site [ion binding]; other site 1341692010922 putative DNA binding site [nucleotide binding]; other site 1341692010923 Predicted esterase [General function prediction only]; Region: COG0400 1341692010924 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1341692010925 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1341692010926 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 1341692010927 N- and C-terminal domain interface [polypeptide binding]; other site 1341692010928 putative active site [active] 1341692010929 MgATP binding site [chemical binding]; other site 1341692010930 catalytic site [active] 1341692010931 metal binding site [ion binding]; metal-binding site 1341692010932 putative xylulose binding site [chemical binding]; other site 1341692010933 putative homodimer interface [polypeptide binding]; other site 1341692010934 CAAX protease self-immunity; Region: Abi; pfam02517 1341692010935 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692010936 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 1341692010937 active site 1341692010938 phosphorylation site [posttranslational modification] 1341692010939 intermolecular recognition site; other site 1341692010940 dimerization interface [polypeptide binding]; other site 1341692010941 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 1341692010942 DNA binding site [nucleotide binding] 1341692010943 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692010944 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 1341692010945 dimerization interface [polypeptide binding]; other site 1341692010946 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 1341692010947 dimer interface [polypeptide binding]; other site 1341692010948 phosphorylation site [posttranslational modification] 1341692010949 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 1341692010950 ATP binding site [chemical binding]; other site 1341692010951 Mg2+ binding site [ion binding]; other site 1341692010952 G-X-G motif; other site 1341692010953 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1341692010954 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1341692010955 active site 1341692010956 FMN binding site [chemical binding]; other site 1341692010957 substrate binding site [chemical binding]; other site 1341692010958 putative catalytic residue [active] 1341692010959 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1341692010960 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1341692010961 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1341692010962 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 1341692010963 active site 1341692010964 metal binding site [ion binding]; metal-binding site 1341692010965 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1341692010966 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1341692010967 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1341692010968 nudix motif; other site 1341692010969 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 1341692010970 MutS domain III; Region: MutS_III; pfam05192 1341692010971 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1341692010972 Walker A/P-loop; other site 1341692010973 ATP binding site [chemical binding]; other site 1341692010974 Q-loop/lid; other site 1341692010975 ABC transporter signature motif; other site 1341692010976 Walker B; other site 1341692010977 D-loop; other site 1341692010978 H-loop/switch region; other site 1341692010979 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1341692010980 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1341692010981 putative oligomer interface [polypeptide binding]; other site 1341692010982 putative active site [active] 1341692010983 metal binding site [ion binding]; metal-binding site 1341692010984 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1341692010985 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1341692010986 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1341692010987 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692010988 Walker A/P-loop; other site 1341692010989 ATP binding site [chemical binding]; other site 1341692010990 Q-loop/lid; other site 1341692010991 ABC transporter signature motif; other site 1341692010992 Walker B; other site 1341692010993 D-loop; other site 1341692010994 H-loop/switch region; other site 1341692010995 threonine dehydratase; Provisional; Region: PRK08198 1341692010996 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 1341692010997 tetramer interface [polypeptide binding]; other site 1341692010998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692010999 catalytic residue [active] 1341692011000 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 1341692011001 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1341692011002 active site 1341692011003 xanthine permease; Region: pbuX; TIGR03173 1341692011004 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1341692011005 catalytic residues [active] 1341692011006 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 1341692011007 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1341692011008 Walker A motif; other site 1341692011009 ATP binding site [chemical binding]; other site 1341692011010 Walker B motif; other site 1341692011011 arginine finger; other site 1341692011012 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1341692011013 MarR family; Region: MarR_2; pfam12802 1341692011014 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1341692011015 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1341692011016 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692011017 Walker A/P-loop; other site 1341692011018 ATP binding site [chemical binding]; other site 1341692011019 Q-loop/lid; other site 1341692011020 ABC transporter signature motif; other site 1341692011021 Walker B; other site 1341692011022 D-loop; other site 1341692011023 H-loop/switch region; other site 1341692011024 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1341692011025 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1341692011026 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1341692011027 Walker A/P-loop; other site 1341692011028 ATP binding site [chemical binding]; other site 1341692011029 Q-loop/lid; other site 1341692011030 ABC transporter signature motif; other site 1341692011031 Walker B; other site 1341692011032 D-loop; other site 1341692011033 H-loop/switch region; other site 1341692011034 Predicted transcriptional regulator [Transcription]; Region: COG2378 1341692011035 HTH domain; Region: HTH_11; pfam08279 1341692011036 WYL domain; Region: WYL; pfam13280 1341692011037 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 1341692011038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1341692011039 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1341692011040 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1341692011041 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1341692011042 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1341692011043 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1341692011044 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 1341692011045 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1341692011046 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1341692011047 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 1341692011048 FMN binding site [chemical binding]; other site 1341692011049 dimer interface [polypeptide binding]; other site 1341692011050 hypothetical protein; Provisional; Region: PRK11171 1341692011051 allantoate amidohydrolase; Reviewed; Region: PRK09290 1341692011052 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1341692011053 active site 1341692011054 metal binding site [ion binding]; metal-binding site 1341692011055 dimer interface [polypeptide binding]; other site 1341692011056 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 1341692011057 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1341692011058 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1341692011059 carbamate kinase; Reviewed; Region: PRK12686 1341692011060 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1341692011061 putative substrate binding site [chemical binding]; other site 1341692011062 nucleotide binding site [chemical binding]; other site 1341692011063 nucleotide binding site [chemical binding]; other site 1341692011064 homodimer interface [polypeptide binding]; other site 1341692011065 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1341692011066 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1341692011067 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1341692011068 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1341692011069 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1341692011070 Na binding site [ion binding]; other site 1341692011071 putative substrate binding site [chemical binding]; other site 1341692011072 allantoinase; Provisional; Region: PRK06189 1341692011073 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 1341692011074 active site 1341692011075 allantoinase; Provisional; Region: PRK06189 1341692011076 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 1341692011077 active site 1341692011078 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 1341692011079 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1341692011080 Na binding site [ion binding]; other site 1341692011081 putative substrate binding site [chemical binding]; other site 1341692011082 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 1341692011083 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 1341692011084 putative FMN binding site [chemical binding]; other site 1341692011085 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1341692011086 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1341692011087 HlyD family secretion protein; Region: HlyD; pfam00529 1341692011088 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1341692011089 HlyD family secretion protein; Region: HlyD_3; pfam13437 1341692011090 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692011091 MarR family; Region: MarR_2; pfam12802 1341692011092 L,D-transpeptidase; Provisional; Region: PRK10260 1341692011093 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1341692011094 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692011095 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 1341692011096 non-specific DNA interactions [nucleotide binding]; other site 1341692011097 DNA binding site [nucleotide binding] 1341692011098 sequence specific DNA binding site [nucleotide binding]; other site 1341692011099 putative cAMP binding site [chemical binding]; other site 1341692011100 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692011101 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 1341692011102 active site 1341692011103 phosphorylation site [posttranslational modification] 1341692011104 intermolecular recognition site; other site 1341692011105 dimerization interface [polypeptide binding]; other site 1341692011106 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 1341692011107 DNA binding site [nucleotide binding] 1341692011108 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 1341692011109 dimer interface [polypeptide binding]; other site 1341692011110 phosphorylation site [posttranslational modification] 1341692011111 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 1341692011112 ATP binding site [chemical binding]; other site 1341692011113 Mg2+ binding site [ion binding]; other site 1341692011114 G-X-G motif; other site 1341692011115 HlyD family secretion protein; Region: HlyD_3; pfam13437 1341692011116 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692011117 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1341692011118 Walker A/P-loop; other site 1341692011119 ATP binding site [chemical binding]; other site 1341692011120 Q-loop/lid; other site 1341692011121 ABC transporter signature motif; other site 1341692011122 Walker B; other site 1341692011123 D-loop; other site 1341692011124 H-loop/switch region; other site 1341692011125 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1341692011126 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1341692011127 FtsX-like permease family; Region: FtsX; pfam02687 1341692011128 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1341692011129 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1341692011130 DNA binding residues [nucleotide binding] 1341692011131 dimer interface [polypeptide binding]; other site 1341692011132 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1341692011133 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1341692011134 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 1341692011135 putative [4Fe-4S] binding site [ion binding]; other site 1341692011136 putative molybdopterin cofactor binding site [chemical binding]; other site 1341692011137 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1341692011138 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1341692011139 Spore germination protein; Region: Spore_permease; cl17796 1341692011140 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1341692011141 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1341692011142 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1341692011143 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1341692011144 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1341692011145 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692011146 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 1341692011147 putative DNA binding site [nucleotide binding]; other site 1341692011148 putative Zn2+ binding site [ion binding]; other site 1341692011149 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1341692011150 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 1341692011151 S-adenosylmethionine binding site [chemical binding]; other site 1341692011152 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1341692011153 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1341692011154 Coenzyme A binding pocket [chemical binding]; other site 1341692011155 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 1341692011156 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 1341692011157 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 1341692011158 dimerization interface [polypeptide binding]; other site 1341692011159 putative DNA binding site [nucleotide binding]; other site 1341692011160 putative Zn2+ binding site [ion binding]; other site 1341692011161 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 1341692011162 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 1341692011163 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 1341692011164 P loop; other site 1341692011165 Nucleotide binding site [chemical binding]; other site 1341692011166 DTAP/Switch II; other site 1341692011167 Switch I; other site 1341692011168 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 1341692011169 P loop; other site 1341692011170 Nucleotide binding site [chemical binding]; other site 1341692011171 DTAP/Switch II; other site 1341692011172 Switch I; other site 1341692011173 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1341692011174 arsenical-resistance protein; Region: acr3; TIGR00832 1341692011175 DGC domain; Region: DGC; cl01742 1341692011176 DGC domain; Region: DGC; cl01742 1341692011177 DGC domain; Region: DGC; pfam08859 1341692011178 glycine cleavage system protein H; Provisional; Region: PRK13380 1341692011179 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 1341692011180 lipoyl attachment site [posttranslational modification]; other site 1341692011181 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 1341692011182 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1341692011183 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 1341692011184 Putative Fe-S cluster; Region: FeS; cl17515 1341692011185 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 1341692011186 dimerization interface [polypeptide binding]; other site 1341692011187 putative DNA binding site [nucleotide binding]; other site 1341692011188 putative Zn2+ binding site [ion binding]; other site 1341692011189 VanZ like family; Region: VanZ; pfam04892 1341692011190 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 1341692011191 Serpin (serine protease inhibitor); Region: Serpin; pfam00079 1341692011192 serpin-like protein; Provisional; Region: PHA02660 1341692011193 reactive center loop; other site 1341692011194 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 1341692011195 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692011196 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 1341692011197 DNA binding residues [nucleotide binding] 1341692011198 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 1341692011199 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1341692011200 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1341692011201 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1341692011202 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1341692011203 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1341692011204 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 1341692011205 PAS domain; Region: PAS_9; pfam13426 1341692011206 putative active site [active] 1341692011207 heme pocket [chemical binding]; other site 1341692011208 PAS domain S-box; Region: sensory_box; TIGR00229 1341692011209 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 1341692011210 putative active site [active] 1341692011211 heme pocket [chemical binding]; other site 1341692011212 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692011213 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692011214 metal binding site [ion binding]; metal-binding site 1341692011215 active site 1341692011216 I-site; other site 1341692011217 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1341692011218 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1341692011219 Zn2+ binding site [ion binding]; other site 1341692011220 Mg2+ binding site [ion binding]; other site 1341692011221 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1341692011222 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1341692011223 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1341692011224 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1341692011225 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1341692011226 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1341692011227 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1341692011228 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 1341692011229 putative substrate translocation pore; other site 1341692011230 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 1341692011231 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692011232 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 1341692011233 active site 1341692011234 phosphorylation site [posttranslational modification] 1341692011235 intermolecular recognition site; other site 1341692011236 dimerization interface [polypeptide binding]; other site 1341692011237 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 1341692011238 DNA binding site [nucleotide binding] 1341692011239 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692011240 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 1341692011241 dimerization interface [polypeptide binding]; other site 1341692011242 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 1341692011243 dimer interface [polypeptide binding]; other site 1341692011244 phosphorylation site [posttranslational modification] 1341692011245 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 1341692011246 ATP binding site [chemical binding]; other site 1341692011247 Mg2+ binding site [ion binding]; other site 1341692011248 G-X-G motif; other site 1341692011249 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1341692011250 active site 1341692011251 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1341692011252 Transglycosylase; Region: Transgly; pfam00912 1341692011253 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1341692011254 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1341692011255 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1341692011256 Transglycosylase; Region: Transgly; pfam00912 1341692011257 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 1341692011258 Domain of unknown function DUF; Region: DUF204; pfam02659 1341692011259 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1341692011260 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1341692011261 active site 1341692011262 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1341692011263 FOG: CBS domain [General function prediction only]; Region: COG0517 1341692011264 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 1341692011265 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1341692011266 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1341692011267 Predicted transcriptional regulators [Transcription]; Region: COG1695 1341692011268 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1341692011269 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1341692011270 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1341692011271 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1341692011272 anthranilate synthase component I; Provisional; Region: PRK13570 1341692011273 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1341692011274 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1341692011275 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1341692011276 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1341692011277 glutamine binding [chemical binding]; other site 1341692011278 catalytic triad [active] 1341692011279 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1341692011280 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1341692011281 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1341692011282 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 1341692011283 active site 1341692011284 product (indole) binding pocket [chemical binding]; other site 1341692011285 substrate (anthranilate) binding pocket [chemical binding]; other site 1341692011286 ribulose/triose binding site [chemical binding]; other site 1341692011287 phosphate binding site [ion binding]; other site 1341692011288 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 1341692011289 active site 1341692011290 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1341692011291 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 1341692011292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692011293 catalytic residue [active] 1341692011294 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 1341692011295 active site 1341692011296 catalytic residues [active] 1341692011297 heterodimer interface [polypeptide binding]; other site 1341692011298 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 1341692011299 phosphate binding site [ion binding]; other site 1341692011300 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1341692011301 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1341692011302 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1341692011303 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1341692011304 catalytic Zn binding site [ion binding]; other site 1341692011305 NAD binding site [chemical binding]; other site 1341692011306 structural Zn binding site [ion binding]; other site 1341692011307 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1341692011308 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1341692011309 active site 1341692011310 FMN binding site [chemical binding]; other site 1341692011311 substrate binding site [chemical binding]; other site 1341692011312 putative catalytic residue [active] 1341692011313 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1341692011314 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1341692011315 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692011316 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692011317 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 1341692011318 dimerization interface [polypeptide binding]; other site 1341692011319 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 1341692011320 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1341692011321 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 1341692011322 DNA binding residues [nucleotide binding] 1341692011323 Predicted transcriptional regulators [Transcription]; Region: COG1695 1341692011324 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1341692011325 CAAX protease self-immunity; Region: Abi; pfam02517 1341692011326 Peptidase family S41; Region: Peptidase_S41; pfam03572 1341692011327 Active site serine [active] 1341692011328 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1341692011329 MarR family; Region: MarR_2; pfam12802 1341692011330 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1341692011331 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1341692011332 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 1341692011333 active site 1341692011334 catalytic residues [active] 1341692011335 metal binding site [ion binding]; metal-binding site 1341692011336 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1341692011337 metal binding site 2 [ion binding]; metal-binding site 1341692011338 putative DNA binding helix; other site 1341692011339 metal binding site 1 [ion binding]; metal-binding site 1341692011340 dimer interface [polypeptide binding]; other site 1341692011341 structural Zn2+ binding site [ion binding]; other site 1341692011342 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692011343 dimer interface [polypeptide binding]; other site 1341692011344 putative CheW interface [polypeptide binding]; other site 1341692011345 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692011346 MarR family; Region: MarR; pfam01047 1341692011347 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1341692011348 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 1341692011349 putative Zn2+ binding site [ion binding]; other site 1341692011350 putative DNA binding site [nucleotide binding]; other site 1341692011351 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1341692011352 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 1341692011353 putative substrate translocation pore; other site 1341692011354 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 1341692011355 ATP binding site [chemical binding]; other site 1341692011356 Mg2+ binding site [ion binding]; other site 1341692011357 G-X-G motif; other site 1341692011358 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1341692011359 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 1341692011360 active site 1341692011361 phosphorylation site [posttranslational modification] 1341692011362 intermolecular recognition site; other site 1341692011363 dimerization interface [polypeptide binding]; other site 1341692011364 LytTr DNA-binding domain; Region: LytTR; pfam04397 1341692011365 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 1341692011366 Predicted membrane protein [Function unknown]; Region: COG2323 1341692011367 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 1341692011368 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1341692011369 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 1341692011370 active site 1341692011371 inner membrane transporter YjeM; Provisional; Region: PRK15238 1341692011372 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1341692011373 Spore germination protein; Region: Spore_permease; cl17796 1341692011374 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1341692011375 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1341692011376 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1341692011377 Spore germination protein; Region: Spore_permease; cl17796 1341692011378 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1341692011379 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1341692011380 putative catalytic cysteine [active] 1341692011381 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1341692011382 putative active site [active] 1341692011383 metal binding site [ion binding]; metal-binding site 1341692011384 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1341692011385 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1341692011386 putative catalytic cysteine [active] 1341692011387 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1341692011388 putative active site [active] 1341692011389 metal binding site [ion binding]; metal-binding site 1341692011390 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1341692011391 Part of AAA domain; Region: AAA_19; pfam13245 1341692011392 Family description; Region: UvrD_C_2; pfam13538 1341692011393 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1341692011394 active site 1341692011395 catalytic residues [active] 1341692011396 DNA binding site [nucleotide binding] 1341692011397 Int/Topo IB signature motif; other site 1341692011398 Helix-turn-helix domain; Region: HTH_36; pfam13730 1341692011399 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 1341692011400 non-specific DNA binding site [nucleotide binding]; other site 1341692011401 salt bridge; other site 1341692011402 sequence-specific DNA binding site [nucleotide binding]; other site 1341692011403 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1341692011404 Restriction endonuclease; Region: Mrr_cat; pfam04471 1341692011405 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 1341692011406 RNA dependent RNA polymerase; Region: RdRP; pfam05183 1341692011407 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1341692011408 GIY-YIG motif/motif A; other site 1341692011409 active site 1341692011410 catalytic site [active] 1341692011411 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 1341692011412 Phage terminase, small subunit; Region: Terminase_4; cl01525 1341692011413 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1341692011414 Phage portal protein; Region: Phage_portal; pfam04860 1341692011415 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1341692011416 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1341692011417 oligomer interface [polypeptide binding]; other site 1341692011418 active site residues [active] 1341692011419 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1341692011420 Phage capsid family; Region: Phage_capsid; pfam05065 1341692011421 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1341692011422 oligomerization interface [polypeptide binding]; other site 1341692011423 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 1341692011424 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1341692011425 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 1341692011426 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 1341692011427 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1341692011428 catalytic residue [active] 1341692011429 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1341692011430 NlpC/P60 family; Region: NLPC_P60; pfam00877 1341692011431 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 1341692011432 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 1341692011433 Baseplate J-like protein; Region: Baseplate_J; pfam04865 1341692011434 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 1341692011435 Right handed beta helix region; Region: Beta_helix; pfam13229 1341692011436 Haemolysin XhlA; Region: XhlA; pfam10779 1341692011437 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1341692011438 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1341692011439 active site 1341692011440 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1341692011441 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 1341692011442 SdpI/YhfL protein family; Region: SdpI; pfam13630 1341692011443 Domain of unknown function (DUF3784); Region: DUF3784; pfam12650 1341692011444 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1341692011445 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1341692011446 active site 1341692011447 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 1341692011448 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011449 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011450 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011451 Rubrerythrin [Energy production and conversion]; Region: COG1592 1341692011452 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1341692011453 binuclear metal center [ion binding]; other site 1341692011454 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 1341692011455 iron binding site [ion binding]; other site 1341692011456 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1341692011457 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1341692011458 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 1341692011459 motif II; other site 1341692011460 Predicted membrane protein [Function unknown]; Region: COG2323 1341692011461 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 1341692011462 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1341692011463 active site 1341692011464 catalytic tetrad [active] 1341692011465 Peptidases of the G1 family, including scytalidoglutamic peptidase and aspergillopepsin; Region: Peptidase_G1; cd13426 1341692011466 polypeptide substrate binding site [polypeptide binding]; other site 1341692011467 active site 1341692011468 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1341692011469 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 1341692011470 putative ligand binding residues [chemical binding]; other site 1341692011471 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 1341692011472 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1341692011473 dimer interface [polypeptide binding]; other site 1341692011474 putative functional site; other site 1341692011475 putative MPT binding site; other site 1341692011476 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1341692011477 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 1341692011478 putative metal binding site [ion binding]; other site 1341692011479 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1341692011480 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 1341692011481 dimer interface [polypeptide binding]; other site 1341692011482 putative PBP binding regions; other site 1341692011483 ABC-ATPase subunit interface; other site 1341692011484 NTPase; Region: NTPase_1; cl17478 1341692011485 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1341692011486 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 1341692011487 intersubunit interface [polypeptide binding]; other site 1341692011488 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1341692011489 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1341692011490 Walker A/P-loop; other site 1341692011491 ATP binding site [chemical binding]; other site 1341692011492 Q-loop/lid; other site 1341692011493 ABC transporter signature motif; other site 1341692011494 Walker B; other site 1341692011495 D-loop; other site 1341692011496 H-loop/switch region; other site 1341692011497 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1341692011498 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1341692011499 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 1341692011500 putative ligand binding residues [chemical binding]; other site 1341692011501 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 1341692011502 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1341692011503 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 1341692011504 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1341692011505 intersubunit interface [polypeptide binding]; other site 1341692011506 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 1341692011507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692011508 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1341692011509 Walker A/P-loop; other site 1341692011510 ATP binding site [chemical binding]; other site 1341692011511 Q-loop/lid; other site 1341692011512 ABC transporter signature motif; other site 1341692011513 Walker B; other site 1341692011514 D-loop; other site 1341692011515 H-loop/switch region; other site 1341692011516 Uncharacterized conserved protein [Function unknown]; Region: COG2014 1341692011517 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 1341692011518 Domain of unknown function (DUF364); Region: DUF364; pfam04016 1341692011519 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 1341692011520 Domain of unknown function (DUF364); Region: DUF364; pfam04016 1341692011521 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 1341692011522 putative ligand binding residues [chemical binding]; other site 1341692011523 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1341692011524 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1341692011525 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1341692011526 DNA binding residues [nucleotide binding] 1341692011527 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 1341692011528 4Fe-4S binding domain; Region: Fer4; pfam00037 1341692011529 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1341692011530 4Fe-4S binding domain; Region: Fer4; pfam00037 1341692011531 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1341692011532 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1341692011533 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 1341692011534 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 1341692011535 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1341692011536 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 1341692011537 active site 1341692011538 phosphorylation site [posttranslational modification] 1341692011539 intermolecular recognition site; other site 1341692011540 dimerization interface [polypeptide binding]; other site 1341692011541 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 1341692011542 DNA binding site [nucleotide binding] 1341692011543 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1341692011544 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 1341692011545 dimerization interface [polypeptide binding]; other site 1341692011546 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 1341692011547 dimer interface [polypeptide binding]; other site 1341692011548 phosphorylation site [posttranslational modification] 1341692011549 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 1341692011550 ATP binding site [chemical binding]; other site 1341692011551 Mg2+ binding site [ion binding]; other site 1341692011552 G-X-G motif; other site 1341692011553 cell division protein FtsA; Region: ftsA; TIGR01174 1341692011554 Cell division protein FtsA; Region: FtsA; smart00842 1341692011555 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1341692011556 nucleotide binding site [chemical binding]; other site 1341692011557 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1341692011558 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1341692011559 metal binding site [ion binding]; metal-binding site 1341692011560 dimer interface [polypeptide binding]; other site 1341692011561 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1341692011562 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 1341692011563 RNA binding surface [nucleotide binding]; other site 1341692011564 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1341692011565 active site 1341692011566 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1341692011567 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1341692011568 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1341692011569 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1341692011570 active site 1341692011571 dimer interface [polypeptide binding]; other site 1341692011572 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1341692011573 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 1341692011574 active site 1341692011575 FMN binding site [chemical binding]; other site 1341692011576 substrate binding site [chemical binding]; other site 1341692011577 3Fe-4S cluster binding site [ion binding]; other site 1341692011578 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1341692011579 domain interface; other site 1341692011580 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1341692011581 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1341692011582 dipeptidase PepV; Reviewed; Region: PRK07318 1341692011583 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1341692011584 active site 1341692011585 metal binding site [ion binding]; metal-binding site 1341692011586 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1341692011587 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1341692011588 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 1341692011589 putative active site [active] 1341692011590 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692011591 MarR family; Region: MarR; pfam01047 1341692011592 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1341692011593 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 1341692011594 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1341692011595 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1341692011596 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 1341692011597 DNA binding residues [nucleotide binding] 1341692011598 dimerization interface [polypeptide binding]; other site 1341692011599 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1341692011600 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 1341692011601 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1341692011602 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692011603 MarR family; Region: MarR_2; pfam12802 1341692011604 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1341692011605 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692011606 putative CheW interface [polypeptide binding]; other site 1341692011607 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692011608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692011609 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 1341692011610 dimerization interface [polypeptide binding]; other site 1341692011611 Chromate transporter; Region: Chromate_transp; pfam02417 1341692011612 Chromate transporter; Region: Chromate_transp; pfam02417 1341692011613 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1341692011614 DJ-1 family protein; Region: not_thiJ; TIGR01383 1341692011615 conserved cys residue [active] 1341692011616 flavodoxin; Provisional; Region: PRK06242 1341692011617 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1341692011618 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 1341692011619 non-specific DNA binding site [nucleotide binding]; other site 1341692011620 salt bridge; other site 1341692011621 sequence-specific DNA binding site [nucleotide binding]; other site 1341692011622 Cache domain; Region: Cache_1; pfam02743 1341692011623 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692011624 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692011625 metal binding site [ion binding]; metal-binding site 1341692011626 active site 1341692011627 I-site; other site 1341692011628 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_34; cd04693 1341692011629 nudix motif; other site 1341692011630 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 1341692011631 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692011632 MarR family; Region: MarR_2; pfam12802 1341692011633 MarR family; Region: MarR_2; cl17246 1341692011634 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 1341692011635 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1341692011636 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1341692011637 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1341692011638 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692011639 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692011640 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 1341692011641 dimerization interface [polypeptide binding]; other site 1341692011642 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1341692011643 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 1341692011644 dimer interface [polypeptide binding]; other site 1341692011645 active site 1341692011646 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 1341692011647 Ligand Binding Site [chemical binding]; other site 1341692011648 Molecular Tunnel; other site 1341692011649 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1341692011650 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1341692011651 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 1341692011652 dimerization interface [polypeptide binding]; other site 1341692011653 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1341692011654 Predicted transcriptional regulators [Transcription]; Region: COG1733 1341692011655 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1341692011656 hypothetical protein; Provisional; Region: PRK10281 1341692011657 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1341692011658 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1341692011659 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1341692011660 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 1341692011661 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1341692011662 active site 1341692011663 motif I; other site 1341692011664 motif II; other site 1341692011665 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 1341692011666 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 1341692011667 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1341692011668 active site 1341692011669 catalytic tetrad [active] 1341692011670 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1341692011671 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1341692011672 Peptidase family M28; Region: Peptidase_M28; pfam04389 1341692011673 metal binding site [ion binding]; metal-binding site 1341692011674 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 1341692011675 active site 1341692011676 catalytic residues [active] 1341692011677 metal binding site [ion binding]; metal-binding site 1341692011678 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1341692011679 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692011680 DNA-binding site [nucleotide binding]; DNA binding site 1341692011681 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 1341692011682 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1341692011683 homodimer interface [polypeptide binding]; other site 1341692011684 catalytic residue [active] 1341692011685 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1341692011686 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 1341692011687 active site 1341692011688 phosphorylation site [posttranslational modification] 1341692011689 intermolecular recognition site; other site 1341692011690 dimerization interface [polypeptide binding]; other site 1341692011691 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1341692011692 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 1341692011693 active site 1341692011694 phosphorylation site [posttranslational modification] 1341692011695 intermolecular recognition site; other site 1341692011696 dimerization interface [polypeptide binding]; other site 1341692011697 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1341692011698 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1341692011699 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 1341692011700 DNA binding site [nucleotide binding] 1341692011701 active site 1341692011702 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1341692011703 A new structural DNA glycosylase; Region: AlkD_like; cd06561 1341692011704 active site 1341692011705 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1341692011706 putative transport protein YifK; Provisional; Region: PRK10746 1341692011707 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 1341692011708 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 1341692011709 ACS interaction site; other site 1341692011710 CODH interaction site; other site 1341692011711 cubane metal cluster (B-cluster) [ion binding]; other site 1341692011712 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 1341692011713 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1341692011714 G1 box; other site 1341692011715 GTP/Mg2+ binding site [chemical binding]; other site 1341692011716 G2 box; other site 1341692011717 Switch I region; other site 1341692011718 G3 box; other site 1341692011719 Switch II region; other site 1341692011720 G4 box; other site 1341692011721 G5 box; other site 1341692011722 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 1341692011723 putative hexamer interface [polypeptide binding]; other site 1341692011724 putative hexagonal pore; other site 1341692011725 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1341692011726 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1341692011727 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 1341692011728 putative MPT binding site; other site 1341692011729 FIST N domain; Region: FIST; pfam08495 1341692011730 FIST C domain; Region: FIST_C; pfam10442 1341692011731 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692011732 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692011733 metal binding site [ion binding]; metal-binding site 1341692011734 active site 1341692011735 I-site; other site 1341692011736 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1341692011737 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1341692011738 DNA binding residues [nucleotide binding] 1341692011739 drug binding residues [chemical binding]; other site 1341692011740 dimer interface [polypeptide binding]; other site 1341692011741 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 1341692011742 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 1341692011743 4Fe-4S binding domain; Region: Fer4; pfam00037 1341692011744 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1341692011745 Nitroreductase family; Region: Nitroreductase; pfam00881 1341692011746 FMN binding site [chemical binding]; other site 1341692011747 dimer interface [polypeptide binding]; other site 1341692011748 Predicted transcriptional regulators [Transcription]; Region: COG1733 1341692011749 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1341692011750 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1341692011751 Bacterial SH3 domain; Region: SH3_3; pfam08239 1341692011752 Bacterial SH3 domain; Region: SH3_3; pfam08239 1341692011753 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011754 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011755 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011756 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1341692011757 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1341692011758 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692011759 dimer interface [polypeptide binding]; other site 1341692011760 putative CheW interface [polypeptide binding]; other site 1341692011761 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1341692011762 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1341692011763 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1341692011764 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1341692011765 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1341692011766 DNA-binding site [nucleotide binding]; DNA binding site 1341692011767 TrkA-C domain; Region: TrkA_C; pfam02080 1341692011768 Yip1 domain; Region: Yip1; pfam04893 1341692011769 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1341692011770 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1341692011771 HlyD family secretion protein; Region: HlyD_3; pfam13437 1341692011772 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1341692011773 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1341692011774 Walker A/P-loop; other site 1341692011775 ATP binding site [chemical binding]; other site 1341692011776 Q-loop/lid; other site 1341692011777 ABC transporter signature motif; other site 1341692011778 Walker B; other site 1341692011779 D-loop; other site 1341692011780 H-loop/switch region; other site 1341692011781 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1341692011782 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1341692011783 FtsX-like permease family; Region: FtsX; pfam02687 1341692011784 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1341692011785 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 1341692011786 DNA binding residues [nucleotide binding] 1341692011787 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1341692011788 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 1341692011789 active site 1341692011790 catalytic motif [active] 1341692011791 Zn binding site [ion binding]; other site 1341692011792 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1341692011793 intersubunit interface [polypeptide binding]; other site 1341692011794 active site 1341692011795 catalytic residue [active] 1341692011796 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1341692011797 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1341692011798 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1341692011799 phosphopentomutase; Provisional; Region: PRK05362 1341692011800 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1341692011801 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 1341692011802 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1341692011803 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1341692011804 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1341692011805 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 1341692011806 TIGR01210 family protein; Region: TIGR01210 1341692011807 QueT transporter; Region: QueT; pfam06177 1341692011808 xylose isomerase; Provisional; Region: PRK05474 1341692011809 xylose isomerase; Region: xylose_isom_A; TIGR02630 1341692011810 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1341692011811 N- and C-terminal domain interface [polypeptide binding]; other site 1341692011812 D-xylulose kinase; Region: XylB; TIGR01312 1341692011813 active site 1341692011814 MgATP binding site [chemical binding]; other site 1341692011815 catalytic site [active] 1341692011816 metal binding site [ion binding]; metal-binding site 1341692011817 xylulose binding site [chemical binding]; other site 1341692011818 homodimer interface [polypeptide binding]; other site 1341692011819 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1341692011820 active site 1341692011821 catalytic residues [active] 1341692011822 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1341692011823 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 1341692011824 putative substrate translocation pore; other site 1341692011825 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 1341692011826 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1341692011827 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1341692011828 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1341692011829 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1341692011830 nucleotide binding site [chemical binding]; other site 1341692011831 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1341692011832 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 1341692011833 dimer interface [polypeptide binding]; other site 1341692011834 conserved gate region; other site 1341692011835 putative PBP binding loops; other site 1341692011836 ABC-ATPase subunit interface; other site 1341692011837 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1341692011838 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1341692011839 Walker A/P-loop; other site 1341692011840 ATP binding site [chemical binding]; other site 1341692011841 Q-loop/lid; other site 1341692011842 ABC transporter signature motif; other site 1341692011843 Walker B; other site 1341692011844 D-loop; other site 1341692011845 H-loop/switch region; other site 1341692011846 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1341692011847 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 1341692011848 substrate binding pocket [chemical binding]; other site 1341692011849 membrane-bound complex binding site; other site 1341692011850 hinge residues; other site 1341692011851 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 1341692011852 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1341692011853 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692011854 Walker A/P-loop; other site 1341692011855 ATP binding site [chemical binding]; other site 1341692011856 Q-loop/lid; other site 1341692011857 ABC transporter signature motif; other site 1341692011858 Walker B; other site 1341692011859 D-loop; other site 1341692011860 H-loop/switch region; other site 1341692011861 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1341692011862 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1341692011863 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1341692011864 active site 1341692011865 catalytic triad [active] 1341692011866 oxyanion hole [active] 1341692011867 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1341692011868 Glutathionylspermidine synthase preATP-grasp; Region: GSP_synth; cl00503 1341692011869 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1341692011870 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1341692011871 Spore germination protein; Region: Spore_permease; cl17796 1341692011872 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1341692011873 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1341692011874 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 1341692011875 putative active site [active] 1341692011876 metal binding site [ion binding]; metal-binding site 1341692011877 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 1341692011878 non-specific DNA binding site [nucleotide binding]; other site 1341692011879 salt bridge; other site 1341692011880 sequence-specific DNA binding site [nucleotide binding]; other site 1341692011881 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692011882 dimer interface [polypeptide binding]; other site 1341692011883 putative CheW interface [polypeptide binding]; other site 1341692011884 Glucose inhibited division protein A; Region: GIDA; pfam01134 1341692011885 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1341692011886 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1341692011887 catalytic residues [active] 1341692011888 catalytic nucleophile [active] 1341692011889 Presynaptic Site I dimer interface [polypeptide binding]; other site 1341692011890 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1341692011891 Synaptic Flat tetramer interface [polypeptide binding]; other site 1341692011892 Synaptic Site I dimer interface [polypeptide binding]; other site 1341692011893 DNA binding site [nucleotide binding] 1341692011894 Recombinase; Region: Recombinase; pfam07508 1341692011895 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1341692011896 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 1341692011897 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 1341692011898 Glucose inhibited division protein A; Region: GIDA; pfam01134 1341692011899 hypothetical protein; Provisional; Region: PRK05802 1341692011900 FAD/NAD binding domain (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)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 1341692011901 FAD binding pocket [chemical binding]; other site 1341692011902 FAD binding motif [chemical binding]; other site 1341692011903 phosphate binding motif [ion binding]; other site 1341692011904 beta-alpha-beta structure motif; other site 1341692011905 NAD binding pocket [chemical binding]; other site 1341692011906 Iron coordination center [ion binding]; other site 1341692011907 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1341692011908 EamA-like transporter family; Region: EamA; pfam00892 1341692011909 EamA-like transporter family; Region: EamA; pfam00892 1341692011910 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011911 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011912 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011913 PAS domain S-box; Region: sensory_box; TIGR00229 1341692011914 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 1341692011915 putative active site [active] 1341692011916 heme pocket [chemical binding]; other site 1341692011917 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1341692011918 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1341692011919 metal binding site [ion binding]; metal-binding site 1341692011920 active site 1341692011921 I-site; other site 1341692011922 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 1341692011923 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1341692011924 dimanganese center [ion binding]; other site 1341692011925 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 1341692011926 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1341692011927 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 1341692011928 catalytic residues [active] 1341692011929 AAA domain; Region: AAA_17; pfam13207 1341692011930 AAA domain; Region: AAA_18; pfam13238 1341692011931 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 1341692011932 S-adenosylmethionine binding site [chemical binding]; other site 1341692011933 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011934 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011935 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011936 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 1341692011937 Cache domain; Region: Cache_1; pfam02743 1341692011938 HAMP domain; Region: HAMP; pfam00672 1341692011939 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692011940 dimer interface [polypeptide binding]; other site 1341692011941 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692011942 putative CheW interface [polypeptide binding]; other site 1341692011943 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1341692011944 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 1341692011945 FeS/SAM binding site; other site 1341692011946 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1341692011947 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1341692011948 transmembrane helices; other site 1341692011949 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 1341692011950 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1341692011951 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1341692011952 GH3 auxin-responsive promoter; Region: GH3; pfam03321 1341692011953 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011954 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011955 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1341692011956 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 1341692011957 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 1341692011958 active site 1341692011959 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1341692011960 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 1341692011961 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 1341692011962 putative N- and C-terminal domain interface [polypeptide binding]; other site 1341692011963 putative active site [active] 1341692011964 putative MgATP binding site [chemical binding]; other site 1341692011965 catalytic site [active] 1341692011966 metal binding site [ion binding]; metal-binding site 1341692011967 putative carbohydrate binding site [chemical binding]; other site 1341692011968 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1341692011969 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1341692011970 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 1341692011971 DNA binding residues [nucleotide binding] 1341692011972 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1341692011973 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1341692011974 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1341692011975 Walker A/P-loop; other site 1341692011976 ATP binding site [chemical binding]; other site 1341692011977 Q-loop/lid; other site 1341692011978 ABC transporter signature motif; other site 1341692011979 Walker B; other site 1341692011980 D-loop; other site 1341692011981 H-loop/switch region; other site 1341692011982 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1341692011983 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1341692011984 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1341692011985 TM-ABC transporter signature motif; other site 1341692011986 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1341692011987 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1341692011988 TM-ABC transporter signature motif; other site 1341692011989 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1341692011990 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 1341692011991 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 1341692011992 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 1341692011993 putative active site; other site 1341692011994 catalytic residue [active] 1341692011995 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1341692011996 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 1341692011997 active site 1341692011998 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 1341692011999 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1341692012000 NodB motif; other site 1341692012001 active site 1341692012002 catalytic site [active] 1341692012003 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1341692012004 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1341692012005 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1341692012006 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1341692012007 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 1341692012008 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 1341692012009 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1341692012010 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 1341692012011 active site 1341692012012 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 1341692012013 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 1341692012014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1341692012015 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1341692012016 Response regulator receiver domain; Region: Response_reg; pfam00072 1341692012017 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 1341692012018 active site 1341692012019 phosphorylation site [posttranslational modification] 1341692012020 intermolecular recognition site; other site 1341692012021 dimerization interface [polypeptide binding]; other site 1341692012022 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1341692012023 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 1341692012024 CheC-like family; Region: CheC; pfam04509 1341692012025 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1341692012026 Cache domain; Region: Cache_1; pfam02743 1341692012027 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1341692012028 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692012029 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1341692012030 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1341692012031 dimer interface [polypeptide binding]; other site 1341692012032 putative CheW interface [polypeptide binding]; other site 1341692012033 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1341692012034 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 1341692012035 putative DNA binding site [nucleotide binding]; other site 1341692012036 putative Zn2+ binding site [ion binding]; other site 1341692012037 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1341692012038 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1341692012039 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692012040 Walker A/P-loop; other site 1341692012041 ATP binding site [chemical binding]; other site 1341692012042 Q-loop/lid; other site 1341692012043 ABC transporter signature motif; other site 1341692012044 Walker B; other site 1341692012045 D-loop; other site 1341692012046 H-loop/switch region; other site 1341692012047 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1341692012048 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1341692012049 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1341692012050 Walker A/P-loop; other site 1341692012051 ATP binding site [chemical binding]; other site 1341692012052 Q-loop/lid; other site 1341692012053 ABC transporter signature motif; other site 1341692012054 Walker B; other site 1341692012055 D-loop; other site 1341692012056 H-loop/switch region; other site 1341692012057 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1341692012058 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 1341692012059 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1341692012060 VanW like protein; Region: VanW; pfam04294 1341692012061 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 1341692012062 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 1341692012063 S-adenosylmethionine binding site [chemical binding]; other site 1341692012064 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 1341692012065 active site 1341692012066 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1341692012067 putative metal binding site; other site 1341692012068 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 1341692012069 binding surface 1341692012070 TPR motif; other site 1341692012071 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1341692012072 Walker A/P-loop; other site 1341692012073 ATP binding site [chemical binding]; other site 1341692012074 Q-loop/lid; other site 1341692012075 VanW like protein; Region: VanW; pfam04294 1341692012076 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1341692012077 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1341692012078 ABC transporter; Region: ABC_tran_2; pfam12848 1341692012079 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1341692012080 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1341692012081 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1341692012082 Predicted membrane protein [Function unknown]; Region: COG4684 1341692012083 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1341692012084 oligoendopeptidase F; Region: pepF; TIGR00181 1341692012085 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1341692012086 active site 1341692012087 Zn binding site [ion binding]; other site 1341692012088 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 1341692012089 ATP binding site [chemical binding]; other site 1341692012090 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1341692012091 putative Mg++ binding site [ion binding]; other site 1341692012092 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 1341692012093 nucleotide binding region [chemical binding]; other site 1341692012094 ATP-binding site [chemical binding]; other site 1341692012095 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 1341692012096 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1341692012097 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 1341692012098 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 1341692012099 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1341692012100 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1341692012101 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 1341692012102 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1341692012103 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 1341692012104 B12 binding site [chemical binding]; other site 1341692012105 cobalt ligand [ion binding]; other site 1341692012106 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1341692012107 MtaA_CmuA_like family. MtaA/CmuA, also MtsA, or methyltransferase 2 (MT2) MT2-A and MT2-M isozymes, are methylcobamide:Coenzyme M methyltransferases, which play a role in metabolic pathways of methane formation from various substrates, such as methylated...; Region: Mta_CmuA_like; cd03307 1341692012108 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1341692012109 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 1341692012110 catalytic loop [active] 1341692012111 iron binding site [ion binding]; other site 1341692012112 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1341692012113 nucleotide binding site [chemical binding]; other site 1341692012114 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1341692012115 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1341692012116 active site 1341692012117 catalytic site [active] 1341692012118 substrate binding site [chemical binding]; other site 1341692012119 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1341692012120 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1341692012121 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1341692012122 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 1341692012123 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 1341692012124 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1341692012125 Helix-turn-helix domain; Region: HTH_28; pfam13518 1341692012126 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1341692012127 Helix-turn-helix domain; Region: HTH_28; pfam13518 1341692012128 Winged helix-turn helix; Region: HTH_29; pfam13551 1341692012129 Protein of unknown function (DUF972); Region: DUF972; pfam06156 1341692012130 HTH-like domain; Region: HTH_21; pfam13276 1341692012131 Integrase core domain; Region: rve; pfam00665 1341692012132 Integrase core domain; Region: rve_2; pfam13333 1341692012133 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1341692012134 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 1341692012135 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1341692012136 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1341692012137 Na binding site [ion binding]; other site 1341692012138 cytosine deaminase; Provisional; Region: PRK09230 1341692012139 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1341692012140 active site 1341692012141 Domain of unknown function (DUF4284); Region: DUF4284; pfam14112