-- dump date 20140619_145231 -- class Genbank::misc_feature -- table misc_feature_note -- id note 754477000001 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 754477000002 aromatic arch; other site 754477000003 DCoH dimer interaction site [polypeptide binding]; other site 754477000004 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 754477000005 DCoH tetramer interaction site [polypeptide binding]; other site 754477000006 substrate binding site [chemical binding]; other site 754477000007 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 754477000008 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 754477000009 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 754477000010 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 754477000011 E3 Ubiquitin ligase; Region: GIDE; pfam12483 754477000012 LemA family; Region: LemA; cl00742 754477000013 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 754477000014 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 754477000015 apolar tunnel; other site 754477000016 heme binding site [chemical binding]; other site 754477000017 dimerization interface [polypeptide binding]; other site 754477000018 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 754477000019 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 754477000020 putative MPT binding site; other site 754477000021 Predicted permeases [General function prediction only]; Region: COG0679 754477000022 HAMP domain; Region: HAMP; pfam00672 754477000023 dimerization interface [polypeptide binding]; other site 754477000024 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477000025 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477000026 metal binding site [ion binding]; metal-binding site 754477000027 active site 754477000028 I-site; other site 754477000029 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 754477000030 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 754477000031 Outer membrane efflux protein; Region: OEP; pfam02321 754477000032 Outer membrane efflux protein; Region: OEP; pfam02321 754477000033 ATP-dependent helicase HepA; Validated; Region: PRK04914 754477000034 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 754477000035 ATP binding site [chemical binding]; other site 754477000036 putative Mg++ binding site [ion binding]; other site 754477000037 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 754477000038 nucleotide binding region [chemical binding]; other site 754477000039 ATP-binding site [chemical binding]; other site 754477000040 Uncharacterized conserved protein [Function unknown]; Region: COG1739 754477000041 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 754477000042 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 754477000043 Methyltransferase domain; Region: Methyltransf_23; pfam13489 754477000044 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 754477000045 S-adenosylmethionine binding site [chemical binding]; other site 754477000046 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 754477000047 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 754477000048 active site 754477000049 metal binding site [ion binding]; metal-binding site 754477000050 hypothetical protein; Provisional; Region: PRK05170 754477000051 polyphosphate kinase; Provisional; Region: PRK05443 754477000052 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 754477000053 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 754477000054 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 754477000055 putative domain interface [polypeptide binding]; other site 754477000056 putative active site [active] 754477000057 catalytic site [active] 754477000058 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 754477000059 putative domain interface [polypeptide binding]; other site 754477000060 putative active site [active] 754477000061 catalytic site [active] 754477000062 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 754477000063 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 754477000064 P-loop; other site 754477000065 Magnesium ion binding site [ion binding]; other site 754477000066 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 754477000067 Magnesium ion binding site [ion binding]; other site 754477000068 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 754477000069 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 754477000070 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 754477000071 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 754477000072 S-adenosylmethionine binding site [chemical binding]; other site 754477000073 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 754477000074 Nitroreductase-like family 2. 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_2; cd02138 754477000075 putative FMN binding site [chemical binding]; other site 754477000076 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 754477000077 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 754477000078 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 754477000079 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 754477000080 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 754477000081 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 754477000082 ATP binding site [chemical binding]; other site 754477000083 putative Mg++ binding site [ion binding]; other site 754477000084 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 754477000085 nucleotide binding region [chemical binding]; other site 754477000086 ATP-binding site [chemical binding]; other site 754477000087 Helicase associated domain (HA2); Region: HA2; pfam04408 754477000088 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 754477000089 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 754477000090 c-type cytochrome, methanol metabolism-related; Region: 4cys_cytochr; TIGR03874 754477000091 Predicted membrane protein [Function unknown]; Region: COG3212 754477000092 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 754477000093 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 754477000094 active site 754477000095 phosphorylation site [posttranslational modification] 754477000096 intermolecular recognition site; other site 754477000097 dimerization interface [polypeptide binding]; other site 754477000098 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 754477000099 DNA binding site [nucleotide binding] 754477000100 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 754477000101 HAMP domain; Region: HAMP; pfam00672 754477000102 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 754477000103 dimer interface [polypeptide binding]; other site 754477000104 phosphorylation site [posttranslational modification] 754477000105 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 754477000106 ATP binding site [chemical binding]; other site 754477000107 Mg2+ binding site [ion binding]; other site 754477000108 G-X-G motif; other site 754477000109 hypothetical protein; Provisional; Region: PRK05255 754477000110 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 754477000111 Anthranilate phosphoribosyltransferase [Amino acid transport and metabolism]; Region: TrpD; COG0547 754477000112 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 754477000113 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 754477000114 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 754477000115 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 754477000116 nucleotide binding pocket [chemical binding]; other site 754477000117 K-X-D-G motif; other site 754477000118 catalytic site [active] 754477000119 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 754477000120 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 754477000121 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 754477000122 Dimer interface [polypeptide binding]; other site 754477000123 BRCT sequence motif; other site 754477000124 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 754477000125 FtsZ protein binding site [polypeptide binding]; other site 754477000126 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 754477000127 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 754477000128 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 754477000129 nucleotide binding site [chemical binding]; other site 754477000130 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 754477000131 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 754477000132 hypothetical protein; Provisional; Region: PRK08960 754477000133 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 754477000134 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477000135 homodimer interface [polypeptide binding]; other site 754477000136 catalytic residue [active] 754477000137 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 754477000138 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 754477000139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 754477000140 Family of unknown function (DUF490); Region: DUF490; pfam04357 754477000141 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 754477000142 Surface antigen; Region: Bac_surface_Ag; pfam01103 754477000143 Actin depolymerization factor/cofilin- and gelsolin-like domains; Region: ADF_gelsolin; cl15697 754477000144 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 754477000145 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 754477000146 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 754477000147 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 754477000148 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 754477000149 NAD(P) binding site [chemical binding]; other site 754477000150 catalytic residues [active] 754477000151 acetyl-CoA synthetase; Provisional; Region: PRK00174 754477000152 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 754477000153 active site 754477000154 CoA binding site [chemical binding]; other site 754477000155 acyl-activating enzyme (AAE) consensus motif; other site 754477000156 AMP binding site [chemical binding]; other site 754477000157 acetate binding site [chemical binding]; other site 754477000158 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 754477000159 RNA binding surface [nucleotide binding]; other site 754477000160 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 754477000161 homodimer interface [polypeptide binding]; other site 754477000162 active site 754477000163 putative chemical substrate binding site [chemical binding]; other site 754477000164 metal binding site [ion binding]; metal-binding site 754477000165 PAS domain S-box; Region: sensory_box; TIGR00229 754477000166 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 754477000167 putative active site [active] 754477000168 heme pocket [chemical binding]; other site 754477000169 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477000170 metal binding site [ion binding]; metal-binding site 754477000171 active site 754477000172 I-site; other site 754477000173 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 754477000174 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 754477000175 FeS/SAM binding site; other site 754477000176 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 754477000177 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 754477000178 YccA-like proteins; Region: YccA_like; cd10433 754477000179 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 754477000180 dimerization interface [polypeptide binding]; other site 754477000181 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 754477000182 PAS domain; Region: PAS; smart00091 754477000183 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 754477000184 dimer interface [polypeptide binding]; other site 754477000185 phosphorylation site [posttranslational modification] 754477000186 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 754477000187 ATP binding site [chemical binding]; other site 754477000188 Mg2+ binding site [ion binding]; other site 754477000189 G-X-G motif; other site 754477000190 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 754477000191 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 754477000192 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 754477000193 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 754477000194 Response regulator receiver domain; Region: Response_reg; pfam00072 754477000195 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 754477000196 active site 754477000197 phosphorylation site [posttranslational modification] 754477000198 intermolecular recognition site; other site 754477000199 dimerization interface [polypeptide binding]; other site 754477000200 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 754477000201 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 754477000202 DNA binding residues [nucleotide binding] 754477000203 Response regulator receiver domain; Region: Response_reg; pfam00072 754477000204 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 754477000205 active site 754477000206 phosphorylation site [posttranslational modification] 754477000207 intermolecular recognition site; other site 754477000208 dimerization interface [polypeptide binding]; other site 754477000209 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 754477000210 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 754477000211 dimer interface [polypeptide binding]; other site 754477000212 phosphorylation site [posttranslational modification] 754477000213 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 754477000214 ATP binding site [chemical binding]; other site 754477000215 Mg2+ binding site [ion binding]; other site 754477000216 G-X-G motif; other site 754477000217 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 754477000218 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 754477000219 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 754477000220 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 754477000221 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 754477000222 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 754477000223 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 754477000224 Domain of unknown function DUF87; Region: DUF87; pfam01935 754477000225 SIR2-like domain; Region: SIR2_2; pfam13289 754477000226 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 754477000227 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 754477000228 NAD(P) binding site [chemical binding]; other site 754477000229 active site 754477000230 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 754477000231 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 754477000232 ligand binding site [chemical binding]; other site 754477000233 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 754477000234 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 754477000235 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 754477000236 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 754477000237 Hexameric tyrosine-coordinated heme protein (HTHP); Region: HTHP; pfam11534 754477000238 NnrS protein; Region: NnrS; pfam05940 754477000239 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 754477000240 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 754477000241 hypothetical protein; Provisional; Region: PRK09272 754477000242 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 754477000243 GAF domain; Region: GAF; pfam01590 754477000244 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 754477000245 Walker A motif; other site 754477000246 ATP binding site [chemical binding]; other site 754477000247 Walker B motif; other site 754477000248 arginine finger; other site 754477000249 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 754477000250 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 754477000251 heme-binding site [chemical binding]; other site 754477000252 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 754477000253 FAD binding pocket [chemical binding]; other site 754477000254 FAD binding motif [chemical binding]; other site 754477000255 phosphate binding motif [ion binding]; other site 754477000256 beta-alpha-beta structure motif; other site 754477000257 NAD binding pocket [chemical binding]; other site 754477000258 Heme binding pocket [chemical binding]; other site 754477000259 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 754477000260 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 754477000261 dimer interface [polypeptide binding]; other site 754477000262 phosphorylation site [posttranslational modification] 754477000263 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 754477000264 ATP binding site [chemical binding]; other site 754477000265 Mg2+ binding site [ion binding]; other site 754477000266 G-X-G motif; other site 754477000267 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 754477000268 DNA binding site [nucleotide binding] 754477000269 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 754477000270 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 754477000271 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 754477000272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 754477000273 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 754477000274 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 754477000275 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 754477000276 active site 754477000277 phosphate binding residues; other site 754477000278 catalytic residues [active] 754477000279 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 754477000280 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 754477000281 isocitrate dehydrogenase; Validated; Region: PRK07362 754477000282 isocitrate dehydrogenase; Reviewed; Region: PRK07006 754477000283 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 754477000284 pseudouridine synthase; Region: TIGR00093 754477000285 active site 754477000286 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 754477000287 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 754477000288 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 754477000289 putative lysogenization regulator; Reviewed; Region: PRK00218 754477000290 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 754477000291 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 754477000292 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 754477000293 substrate binding site [chemical binding]; other site 754477000294 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 754477000295 substrate binding site [chemical binding]; other site 754477000296 ligand binding site [chemical binding]; other site 754477000297 adenylosuccinate lyase; Provisional; Region: PRK09285 754477000298 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 754477000299 tetramer interface [polypeptide binding]; other site 754477000300 active site 754477000301 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 754477000302 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 754477000303 dimer interface [polypeptide binding]; other site 754477000304 FMN binding site [chemical binding]; other site 754477000305 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477000306 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477000307 metal binding site [ion binding]; metal-binding site 754477000308 active site 754477000309 I-site; other site 754477000310 argininosuccinate synthase; Provisional; Region: PRK13820 754477000311 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 754477000312 ANP binding site [chemical binding]; other site 754477000313 Substrate Binding Site II [chemical binding]; other site 754477000314 Substrate Binding Site I [chemical binding]; other site 754477000315 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 754477000316 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 754477000317 E3 interaction surface; other site 754477000318 lipoyl attachment site [posttranslational modification]; other site 754477000319 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 754477000320 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 754477000321 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 754477000322 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 754477000323 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 754477000324 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 754477000325 E3 interaction surface; other site 754477000326 lipoyl attachment site [posttranslational modification]; other site 754477000327 e3 binding domain; Region: E3_binding; pfam02817 754477000328 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 754477000329 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 754477000330 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 754477000331 dimer interface [polypeptide binding]; other site 754477000332 TPP-binding site [chemical binding]; other site 754477000333 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 754477000334 TMAO/DMSO reductase; Reviewed; Region: PRK05363 754477000335 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 754477000336 Moco binding site; other site 754477000337 metal coordination site [ion binding]; other site 754477000338 DoxX; Region: DoxX; pfam07681 754477000339 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 754477000340 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 754477000341 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 754477000342 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 754477000343 DNA binding residues [nucleotide binding] 754477000344 Putative zinc-finger; Region: zf-HC2; pfam13490 754477000345 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 754477000346 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 754477000347 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 754477000348 Walker A/P-loop; other site 754477000349 ATP binding site [chemical binding]; other site 754477000350 Q-loop/lid; other site 754477000351 ABC transporter signature motif; other site 754477000352 Walker B; other site 754477000353 D-loop; other site 754477000354 H-loop/switch region; other site 754477000355 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 754477000356 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 754477000357 Walker A/P-loop; other site 754477000358 ATP binding site [chemical binding]; other site 754477000359 Q-loop/lid; other site 754477000360 ABC transporter signature motif; other site 754477000361 Walker B; other site 754477000362 D-loop; other site 754477000363 H-loop/switch region; other site 754477000364 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 754477000365 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 754477000366 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 754477000367 dimer interface [polypeptide binding]; other site 754477000368 conserved gate region; other site 754477000369 putative PBP binding loops; other site 754477000370 ABC-ATPase subunit interface; other site 754477000371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 754477000372 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 754477000373 Chorismate mutase type II; Region: CM_2; cl00693 754477000374 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 754477000375 Prephenate dehydratase; Region: PDT; pfam00800 754477000376 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 754477000377 putative L-Phe binding site [chemical binding]; other site 754477000378 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 754477000379 homodimer interface [polypeptide binding]; other site 754477000380 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477000381 substrate-cofactor binding pocket; other site 754477000382 catalytic residue [active] 754477000383 DNA gyrase subunit A; Validated; Region: PRK05560 754477000384 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 754477000385 CAP-like domain; other site 754477000386 active site 754477000387 primary dimer interface [polypeptide binding]; other site 754477000388 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 754477000389 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 754477000390 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 754477000391 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 754477000392 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 754477000393 active site 754477000394 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 754477000395 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 754477000396 dimer interface [polypeptide binding]; other site 754477000397 substrate binding site [chemical binding]; other site 754477000398 ATP binding site [chemical binding]; other site 754477000399 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 754477000400 thiamine phosphate binding site [chemical binding]; other site 754477000401 active site 754477000402 pyrophosphate binding site [ion binding]; other site 754477000403 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 754477000404 ThiS interaction site; other site 754477000405 putative active site [active] 754477000406 tetramer interface [polypeptide binding]; other site 754477000407 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 754477000408 thiS-thiF/thiG interaction site; other site 754477000409 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 754477000410 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 754477000411 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 754477000412 ThiC-associated domain; Region: ThiC-associated; pfam13667 754477000413 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 754477000414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 754477000415 Smr domain; Region: Smr; pfam01713 754477000416 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 754477000417 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 754477000418 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477000419 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477000420 metal binding site [ion binding]; metal-binding site 754477000421 active site 754477000422 I-site; other site 754477000423 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 754477000424 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 754477000425 dimerization interface [polypeptide binding]; other site 754477000426 ATP binding site [chemical binding]; other site 754477000427 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 754477000428 dimerization interface [polypeptide binding]; other site 754477000429 ATP binding site [chemical binding]; other site 754477000430 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 754477000431 putative active site [active] 754477000432 catalytic triad [active] 754477000433 RDD family; Region: RDD; pfam06271 754477000434 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 754477000435 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 754477000436 nucleotide binding site/active site [active] 754477000437 HIT family signature motif; other site 754477000438 catalytic residue [active] 754477000439 aminopeptidase N; Provisional; Region: pepN; PRK14015 754477000440 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 754477000441 active site 754477000442 Zn binding site [ion binding]; other site 754477000443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 754477000444 FOG: WD40 repeat [General function prediction only]; Region: COG2319 754477000445 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 754477000446 structural tetrad; other site 754477000447 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 754477000448 trimer interface [polypeptide binding]; other site 754477000449 active site 754477000450 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 754477000451 Predicted amidohydrolase [General function prediction only]; Region: COG0388 754477000452 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 754477000453 putative active site [active] 754477000454 catalytic triad [active] 754477000455 putative dimer interface [polypeptide binding]; other site 754477000456 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 754477000457 Coenzyme A binding pocket [chemical binding]; other site 754477000458 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 754477000459 agmatinase; Region: agmatinase; TIGR01230 754477000460 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 754477000461 putative active site [active] 754477000462 Mn binding site [ion binding]; other site 754477000463 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 754477000464 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 754477000465 dimer interface [polypeptide binding]; other site 754477000466 active site 754477000467 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 754477000468 catalytic residues [active] 754477000469 substrate binding site [chemical binding]; other site 754477000470 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 754477000471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 754477000472 arginine decarboxylase; Provisional; Region: PRK05354 754477000473 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 754477000474 dimer interface [polypeptide binding]; other site 754477000475 active site 754477000476 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 754477000477 catalytic residues [active] 754477000478 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 754477000479 Predicted deacylase [General function prediction only]; Region: COG3608 754477000480 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 754477000481 putative active site [active] 754477000482 Zn binding site [ion binding]; other site 754477000483 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 754477000484 RimK-like ATP-grasp domain; Region: RimK; pfam08443 754477000485 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 754477000486 Pilin (bacterial filament); Region: Pilin; pfam00114 754477000487 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 754477000488 O-Antigen ligase; Region: Wzy_C; pfam04932 754477000489 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 754477000490 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 754477000491 TPR repeat; Region: TPR_11; pfam13414 754477000492 binding surface 754477000493 TPR motif; other site 754477000494 TPR repeat; Region: TPR_11; pfam13414 754477000495 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 754477000496 binding surface 754477000497 TPR repeat; Region: TPR_11; pfam13414 754477000498 TPR motif; other site 754477000499 TPR repeat; Region: TPR_11; pfam13414 754477000500 Tetratricopeptide repeat; Region: TPR_16; pfam13432 754477000501 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 754477000502 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 754477000503 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 754477000504 hypothetical protein; Provisional; Region: PRK05409 754477000505 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 754477000506 active site residue [active] 754477000507 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 754477000508 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 754477000509 dimer interface [polypeptide binding]; other site 754477000510 conserved gate region; other site 754477000511 putative PBP binding loops; other site 754477000512 ABC-ATPase subunit interface; other site 754477000513 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 754477000514 dinuclear metal binding motif [ion binding]; other site 754477000515 hypothetical protein; Validated; Region: PRK01777 754477000516 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 754477000517 putative coenzyme Q binding site [chemical binding]; other site 754477000518 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 754477000519 Na2 binding site [ion binding]; other site 754477000520 putative substrate binding site 1 [chemical binding]; other site 754477000521 Na binding site 1 [ion binding]; other site 754477000522 putative substrate binding site 2 [chemical binding]; other site 754477000523 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 754477000524 SmpB-tmRNA interface; other site 754477000525 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 754477000526 Predicted membrane protein [Function unknown]; Region: COG1238 754477000527 methionine sulfoxide reductase A; Provisional; Region: PRK14054 754477000528 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 754477000529 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 754477000530 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 754477000531 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477000532 N-terminal plug; other site 754477000533 ligand-binding site [chemical binding]; other site 754477000534 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 754477000535 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 754477000536 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 754477000537 Secretin and TonB N terminus short domain; Region: STN; smart00965 754477000538 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 754477000539 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477000540 N-terminal plug; other site 754477000541 ligand-binding site [chemical binding]; other site 754477000542 fec operon regulator FecR; Reviewed; Region: PRK09774 754477000543 FecR protein; Region: FecR; pfam04773 754477000544 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 754477000545 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 754477000546 DNA binding residues [nucleotide binding] 754477000547 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 754477000548 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 754477000549 Walker A motif; other site 754477000550 ATP binding site [chemical binding]; other site 754477000551 Walker B motif; other site 754477000552 arginine finger; other site 754477000553 Mechanosensitive ion channel; Region: MS_channel; pfam00924 754477000554 MarR family; Region: MarR_2; cl17246 754477000555 Ion transport protein; Region: Ion_trans; pfam00520 754477000556 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 754477000557 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 754477000558 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 754477000559 Coenzyme A binding pocket [chemical binding]; other site 754477000560 Methyltransferase domain; Region: Methyltransf_23; pfam13489 754477000561 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 754477000562 S-adenosylmethionine binding site [chemical binding]; other site 754477000563 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 754477000564 S-adenosylmethionine binding site [chemical binding]; other site 754477000565 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 754477000566 Glycoprotease family; Region: Peptidase_M22; pfam00814 754477000567 hypothetical protein; Provisional; Region: PRK01254 754477000568 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 754477000569 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 754477000570 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 754477000571 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 754477000572 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 754477000573 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 754477000574 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 754477000575 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 754477000576 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 754477000577 substrate binding site [chemical binding]; other site 754477000578 hexamer interface [polypeptide binding]; other site 754477000579 metal binding site [ion binding]; metal-binding site 754477000580 anthranilate synthase component I; Provisional; Region: PRK13565 754477000581 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 754477000582 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 754477000583 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 754477000584 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 754477000585 glutamine binding [chemical binding]; other site 754477000586 catalytic triad [active] 754477000587 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 754477000588 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 754477000589 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 754477000590 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 754477000591 active site 754477000592 ribulose/triose binding site [chemical binding]; other site 754477000593 phosphate binding site [ion binding]; other site 754477000594 substrate (anthranilate) binding pocket [chemical binding]; other site 754477000595 product (indole) binding pocket [chemical binding]; other site 754477000596 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 754477000597 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 754477000598 ligand binding site [chemical binding]; other site 754477000599 flexible hinge region; other site 754477000600 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 754477000601 non-specific DNA interactions [nucleotide binding]; other site 754477000602 DNA binding site [nucleotide binding] 754477000603 sequence specific DNA binding site [nucleotide binding]; other site 754477000604 putative cAMP binding site [chemical binding]; other site 754477000605 OsmC-like protein; Region: OsmC; cl00767 754477000606 YcgL domain; Region: YcgL; cl01189 754477000607 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 754477000608 MutS domain I; Region: MutS_I; pfam01624 754477000609 MutS domain II; Region: MutS_II; pfam05188 754477000610 MutS domain III; Region: MutS_III; pfam05192 754477000611 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 754477000612 Walker A/P-loop; other site 754477000613 ATP binding site [chemical binding]; other site 754477000614 Q-loop/lid; other site 754477000615 ABC transporter signature motif; other site 754477000616 Walker B; other site 754477000617 D-loop; other site 754477000618 H-loop/switch region; other site 754477000619 Competence-damaged protein; Region: CinA; cl00666 754477000620 recombinase A; Provisional; Region: recA; PRK09354 754477000621 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 754477000622 hexamer interface [polypeptide binding]; other site 754477000623 Walker A motif; other site 754477000624 ATP binding site [chemical binding]; other site 754477000625 Walker B motif; other site 754477000626 recombination regulator RecX; Reviewed; Region: recX; PRK00117 754477000627 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 754477000628 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 754477000629 motif 1; other site 754477000630 active site 754477000631 motif 2; other site 754477000632 motif 3; other site 754477000633 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 754477000634 DHHA1 domain; Region: DHHA1; pfam02272 754477000635 aspartate kinase; Reviewed; Region: PRK06635 754477000636 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 754477000637 putative nucleotide binding site [chemical binding]; other site 754477000638 putative catalytic residues [active] 754477000639 putative Mg ion binding site [ion binding]; other site 754477000640 putative aspartate binding site [chemical binding]; other site 754477000641 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 754477000642 putative allosteric regulatory site; other site 754477000643 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 754477000644 putative allosteric regulatory residue; other site 754477000645 carbon storage regulator; Provisional; Region: PRK01712 754477000646 LexA repressor; Validated; Region: PRK00215 754477000647 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 754477000648 Catalytic site [active] 754477000649 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 754477000650 catalytic residues [active] 754477000651 dimer interface [polypeptide binding]; other site 754477000652 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 754477000653 conserved hypothetical protein; Region: MG423; TIGR00649 754477000654 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 754477000655 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 754477000656 oxaloacetate decarboxylase; Provisional; Region: PRK14040 754477000657 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 754477000658 active site 754477000659 catalytic residues [active] 754477000660 metal binding site [ion binding]; metal-binding site 754477000661 homodimer binding site [polypeptide binding]; other site 754477000662 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 754477000663 carboxyltransferase (CT) interaction site; other site 754477000664 biotinylation site [posttranslational modification]; other site 754477000665 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 754477000666 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 754477000667 RNA binding surface [nucleotide binding]; other site 754477000668 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 754477000669 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 754477000670 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 754477000671 DNA binding site [nucleotide binding] 754477000672 active site 754477000673 Pirin-related protein [General function prediction only]; Region: COG1741 754477000674 Pirin; Region: Pirin; pfam02678 754477000675 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 754477000676 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 754477000677 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 754477000678 Transcriptional regulator [Transcription]; Region: LysR; COG0583 754477000679 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 754477000680 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 754477000681 putative effector binding pocket; other site 754477000682 dimerization interface [polypeptide binding]; other site 754477000683 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 754477000684 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 754477000685 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 754477000686 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 754477000687 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 754477000688 trehalose synthase; Region: treS_nterm; TIGR02456 754477000689 active site 754477000690 catalytic site [active] 754477000691 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 754477000692 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 754477000693 putative substrate binding site [chemical binding]; other site 754477000694 putative ATP binding site [chemical binding]; other site 754477000695 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 754477000696 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 754477000697 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 754477000698 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 754477000699 putative ADP-binding pocket [chemical binding]; other site 754477000700 sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial; Region: sucr_syn_bact_C; TIGR02471 754477000701 Predicted methyltransferase [General function prediction only]; Region: COG4798 754477000702 Methyltransferase domain; Region: Methyltransf_23; pfam13489 754477000703 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 754477000704 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 754477000705 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 754477000706 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 754477000707 L-aspartate oxidase; Provisional; Region: PRK06175 754477000708 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 754477000709 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 754477000710 putative Iron-sulfur protein interface [polypeptide binding]; other site 754477000711 proximal heme binding site [chemical binding]; other site 754477000712 putative dimer interface [polypeptide binding]; other site 754477000713 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 754477000714 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 754477000715 active site 754477000716 HIGH motif; other site 754477000717 KMSKS motif; other site 754477000718 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 754477000719 anticodon binding site; other site 754477000720 tRNA binding surface [nucleotide binding]; other site 754477000721 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 754477000722 dimer interface [polypeptide binding]; other site 754477000723 putative tRNA-binding site [nucleotide binding]; other site 754477000724 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 754477000725 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 754477000726 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 754477000727 putative dimer interface [polypeptide binding]; other site 754477000728 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 754477000729 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 754477000730 active site 754477000731 phosphorylation site [posttranslational modification] 754477000732 intermolecular recognition site; other site 754477000733 dimerization interface [polypeptide binding]; other site 754477000734 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 754477000735 DNA binding residues [nucleotide binding] 754477000736 dimerization interface [polypeptide binding]; other site 754477000737 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 754477000738 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 754477000739 Histidine kinase; Region: HisKA_3; pfam07730 754477000740 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 754477000741 ATP binding site [chemical binding]; other site 754477000742 Mg2+ binding site [ion binding]; other site 754477000743 G-X-G motif; other site 754477000744 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 754477000745 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 754477000746 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 754477000747 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 754477000748 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 754477000749 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 754477000750 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 754477000751 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 754477000752 Walker A motif; other site 754477000753 ATP binding site [chemical binding]; other site 754477000754 Walker B motif; other site 754477000755 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 754477000756 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 754477000757 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 754477000758 O-Antigen ligase; Region: Wzy_C; pfam04932 754477000759 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 754477000760 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 754477000761 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 754477000762 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 754477000763 trimerization site [polypeptide binding]; other site 754477000764 active site 754477000765 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 754477000766 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 754477000767 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 754477000768 catalytic residue [active] 754477000769 FeS assembly protein SufD; Region: sufD; TIGR01981 754477000770 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 754477000771 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 754477000772 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 754477000773 Walker A/P-loop; other site 754477000774 ATP binding site [chemical binding]; other site 754477000775 Q-loop/lid; other site 754477000776 ABC transporter signature motif; other site 754477000777 Walker B; other site 754477000778 D-loop; other site 754477000779 H-loop/switch region; other site 754477000780 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 754477000781 putative ABC transporter; Region: ycf24; CHL00085 754477000782 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 754477000783 Transcriptional regulator; Region: Rrf2; pfam02082 754477000784 Transcriptional regulator; Region: Rrf2; cl17282 754477000785 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 754477000786 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 754477000787 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 754477000788 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 754477000789 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 754477000790 amidase catalytic site [active] 754477000791 Zn binding residues [ion binding]; other site 754477000792 substrate binding site [chemical binding]; other site 754477000793 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 754477000794 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 754477000795 dimerization interface [polypeptide binding]; other site 754477000796 active site 754477000797 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 754477000798 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477000799 N-terminal plug; other site 754477000800 ligand-binding site [chemical binding]; other site 754477000801 siroheme synthase; Provisional; Region: cysG; PRK10637 754477000802 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 754477000803 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 754477000804 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 754477000805 active site 754477000806 SAM binding site [chemical binding]; other site 754477000807 homodimer interface [polypeptide binding]; other site 754477000808 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 754477000809 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 754477000810 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 754477000811 Permutation of conserved domain; other site 754477000812 active site 754477000813 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cd01291 754477000814 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 754477000815 homotrimer interaction site [polypeptide binding]; other site 754477000816 zinc binding site [ion binding]; other site 754477000817 CDP-binding sites; other site 754477000818 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 754477000819 substrate binding site; other site 754477000820 dimer interface; other site 754477000821 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 754477000822 Septum formation initiator; Region: DivIC; cl17659 754477000823 enolase; Provisional; Region: eno; PRK00077 754477000824 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 754477000825 dimer interface [polypeptide binding]; other site 754477000826 metal binding site [ion binding]; metal-binding site 754477000827 substrate binding pocket [chemical binding]; other site 754477000828 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 754477000829 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 754477000830 CTP synthetase; Validated; Region: pyrG; PRK05380 754477000831 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 754477000832 Catalytic site [active] 754477000833 active site 754477000834 UTP binding site [chemical binding]; other site 754477000835 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 754477000836 active site 754477000837 putative oxyanion hole; other site 754477000838 catalytic triad [active] 754477000839 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 754477000840 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 754477000841 Ligand Binding Site [chemical binding]; other site 754477000842 TilS substrate binding domain; Region: TilS; pfam09179 754477000843 TilS substrate C-terminal domain; Region: TilS_C; smart00977 754477000844 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 754477000845 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 754477000846 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 754477000847 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 754477000848 Walker A motif; other site 754477000849 ATP binding site [chemical binding]; other site 754477000850 Walker B motif; other site 754477000851 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 754477000852 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 754477000853 putative active site [active] 754477000854 putative PHP Thumb interface [polypeptide binding]; other site 754477000855 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 754477000856 generic binding surface I; other site 754477000857 generic binding surface II; other site 754477000858 beta-hexosaminidase; Provisional; Region: PRK05337 754477000859 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 754477000860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 754477000861 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 754477000862 von Willebrand factor type A domain; Region: VWA_2; pfam13519 754477000863 metal ion-dependent adhesion site (MIDAS); other site 754477000864 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 754477000865 metal ion-dependent adhesion site (MIDAS); other site 754477000866 Protein of unknown function DUF58; Region: DUF58; pfam01882 754477000867 MoxR-like ATPases [General function prediction only]; Region: COG0714 754477000868 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 754477000869 Histidine kinase; Region: HisKA_3; pfam07730 754477000870 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 754477000871 ATP binding site [chemical binding]; other site 754477000872 Mg2+ binding site [ion binding]; other site 754477000873 G-X-G motif; other site 754477000874 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 754477000875 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 754477000876 active site 754477000877 phosphorylation site [posttranslational modification] 754477000878 intermolecular recognition site; other site 754477000879 dimerization interface [polypeptide binding]; other site 754477000880 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 754477000881 DNA binding residues [nucleotide binding] 754477000882 dimerization interface [polypeptide binding]; other site 754477000883 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 754477000884 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 754477000885 catalytic residue [active] 754477000886 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 754477000887 catalytic residues [active] 754477000888 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 754477000889 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 754477000890 peroxiredoxin; Region: AhpC; TIGR03137 754477000891 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 754477000892 dimer interface [polypeptide binding]; other site 754477000893 decamer (pentamer of dimers) interface [polypeptide binding]; other site 754477000894 catalytic triad [active] 754477000895 peroxidatic and resolving cysteines [active] 754477000896 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 754477000897 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 754477000898 inhibitor-cofactor binding pocket; inhibition site 754477000899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477000900 catalytic residue [active] 754477000901 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 754477000902 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 754477000903 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 754477000904 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 754477000905 catalytic residue [active] 754477000906 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 754477000907 Rrf2 family protein; Region: rrf2_super; TIGR00738 754477000908 serine O-acetyltransferase; Region: cysE; TIGR01172 754477000909 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 754477000910 trimer interface [polypeptide binding]; other site 754477000911 active site 754477000912 substrate binding site [chemical binding]; other site 754477000913 CoA binding site [chemical binding]; other site 754477000914 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 754477000915 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 754477000916 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 754477000917 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 754477000918 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 754477000919 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 754477000920 active site 754477000921 catalytic triad [active] 754477000922 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 754477000923 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 754477000924 Walker A motif; other site 754477000925 ATP binding site [chemical binding]; other site 754477000926 Walker B motif; other site 754477000927 arginine finger; other site 754477000928 HTH-like domain; Region: HTH_21; pfam13276 754477000929 Transposase; Region: HTH_Tnp_1; pfam01527 754477000930 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 754477000931 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 754477000932 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 754477000933 dimerization interface [polypeptide binding]; other site 754477000934 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 754477000935 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477000936 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477000937 metal binding site [ion binding]; metal-binding site 754477000938 active site 754477000939 I-site; other site 754477000940 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 754477000941 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 754477000942 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 754477000943 heme binding site [chemical binding]; other site 754477000944 ferroxidase pore; other site 754477000945 ferroxidase diiron center [ion binding]; other site 754477000946 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 754477000947 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 754477000948 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 754477000949 active site 754477000950 phosphorylation site [posttranslational modification] 754477000951 intermolecular recognition site; other site 754477000952 dimerization interface [polypeptide binding]; other site 754477000953 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 754477000954 DNA binding site [nucleotide binding] 754477000955 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 754477000956 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 754477000957 dimer interface [polypeptide binding]; other site 754477000958 phosphorylation site [posttranslational modification] 754477000959 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 754477000960 ATP binding site [chemical binding]; other site 754477000961 Mg2+ binding site [ion binding]; other site 754477000962 G-X-G motif; other site 754477000963 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 754477000964 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 754477000965 S-adenosylmethionine binding site [chemical binding]; other site 754477000966 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 754477000967 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 754477000968 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 754477000969 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 754477000970 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 754477000971 S-adenosylmethionine binding site [chemical binding]; other site 754477000972 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 754477000973 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 754477000974 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 754477000975 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 754477000976 Fatty acid desaturase; Region: FA_desaturase; pfam00487 754477000977 Di-iron ligands [ion binding]; other site 754477000978 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 754477000979 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 754477000980 SnoaL-like domain; Region: SnoaL_2; pfam12680 754477000981 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 754477000982 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 754477000983 TPR motif; other site 754477000984 TPR repeat; Region: TPR_11; pfam13414 754477000985 binding surface 754477000986 aspartate kinase; Validated; Region: PRK09181 754477000987 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 754477000988 putative catalytic residues [active] 754477000989 putative nucleotide binding site [chemical binding]; other site 754477000990 putative aspartate binding site [chemical binding]; other site 754477000991 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 754477000992 allosteric regulatory residue; other site 754477000993 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_2; cd04915 754477000994 Ectoine synthase; Region: Ectoine_synth; pfam06339 754477000995 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 754477000996 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 754477000997 inhibitor-cofactor binding pocket; inhibition site 754477000998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477000999 catalytic residue [active] 754477001000 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 754477001001 Coenzyme A binding pocket [chemical binding]; other site 754477001002 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 754477001003 MarR family; Region: MarR; pfam01047 754477001004 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 754477001005 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 754477001006 active site 754477001007 catalytic tetrad [active] 754477001008 Predicted metalloprotease [General function prediction only]; Region: COG2321 754477001009 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 754477001010 phosphoenolpyruvate synthase; Validated; Region: PRK06464 754477001011 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 754477001012 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 754477001013 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 754477001014 PEP synthetase regulatory protein; Provisional; Region: PRK05339 754477001015 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 754477001016 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 754477001017 DNA binding residues [nucleotide binding] 754477001018 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 754477001019 IHF dimer interface [polypeptide binding]; other site 754477001020 IHF - DNA interface [nucleotide binding]; other site 754477001021 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 754477001022 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 754477001023 putative tRNA-binding site [nucleotide binding]; other site 754477001024 B3/4 domain; Region: B3_4; pfam03483 754477001025 tRNA synthetase B5 domain; Region: B5; smart00874 754477001026 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 754477001027 dimer interface [polypeptide binding]; other site 754477001028 motif 1; other site 754477001029 motif 3; other site 754477001030 motif 2; other site 754477001031 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 754477001032 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 754477001033 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 754477001034 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 754477001035 dimer interface [polypeptide binding]; other site 754477001036 motif 1; other site 754477001037 active site 754477001038 motif 2; other site 754477001039 motif 3; other site 754477001040 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 754477001041 23S rRNA binding site [nucleotide binding]; other site 754477001042 L21 binding site [polypeptide binding]; other site 754477001043 L13 binding site [polypeptide binding]; other site 754477001044 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 754477001045 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 754477001046 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 754477001047 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 754477001048 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 754477001049 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 754477001050 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 754477001051 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 754477001052 active site 754477001053 dimer interface [polypeptide binding]; other site 754477001054 motif 1; other site 754477001055 motif 2; other site 754477001056 motif 3; other site 754477001057 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 754477001058 anticodon binding site; other site 754477001059 excinuclease ABC subunit B; Provisional; Region: PRK05298 754477001060 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 754477001061 ATP binding site [chemical binding]; other site 754477001062 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 754477001063 nucleotide binding region [chemical binding]; other site 754477001064 ATP-binding site [chemical binding]; other site 754477001065 Ultra-violet resistance protein B; Region: UvrB; pfam12344 754477001066 UvrB/uvrC motif; Region: UVR; pfam02151 754477001067 aspartate aminotransferase; Provisional; Region: PRK05764 754477001068 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 754477001069 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477001070 homodimer interface [polypeptide binding]; other site 754477001071 catalytic residue [active] 754477001072 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 754477001073 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 754477001074 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477001075 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477001076 metal binding site [ion binding]; metal-binding site 754477001077 active site 754477001078 I-site; other site 754477001079 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 754477001080 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 754477001081 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477001082 Phytase; Region: Phytase; cl17685 754477001083 Phytase; Region: Phytase; cl17685 754477001084 TolQ protein; Region: tolQ; TIGR02796 754477001085 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 754477001086 TolR protein; Region: tolR; TIGR02801 754477001087 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 754477001088 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 754477001089 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 754477001090 PAS domain; Region: PAS_9; pfam13426 754477001091 putative active site [active] 754477001092 heme pocket [chemical binding]; other site 754477001093 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 754477001094 PAS domain; Region: PAS_9; pfam13426 754477001095 putative active site [active] 754477001096 heme pocket [chemical binding]; other site 754477001097 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 754477001098 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 754477001099 dimer interface [polypeptide binding]; other site 754477001100 putative CheW interface [polypeptide binding]; other site 754477001101 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 754477001102 Flavodoxin; Region: Flavodoxin_1; pfam00258 754477001103 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 754477001104 FAD binding pocket [chemical binding]; other site 754477001105 FAD binding motif [chemical binding]; other site 754477001106 catalytic residues [active] 754477001107 NAD binding pocket [chemical binding]; other site 754477001108 phosphate binding motif [ion binding]; other site 754477001109 beta-alpha-beta structure motif; other site 754477001110 sulfite reductase subunit beta; Provisional; Region: PRK13504 754477001111 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 754477001112 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 754477001113 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 754477001114 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 754477001115 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 754477001116 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 754477001117 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 754477001118 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 754477001119 SurA N-terminal domain; Region: SurA_N_3; cl07813 754477001120 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 754477001121 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 754477001122 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477001123 Walker A/P-loop; other site 754477001124 ATP binding site [chemical binding]; other site 754477001125 Q-loop/lid; other site 754477001126 ABC transporter signature motif; other site 754477001127 Walker B; other site 754477001128 D-loop; other site 754477001129 H-loop/switch region; other site 754477001130 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 754477001131 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 754477001132 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477001133 Walker A/P-loop; other site 754477001134 ATP binding site [chemical binding]; other site 754477001135 Q-loop/lid; other site 754477001136 ABC transporter signature motif; other site 754477001137 Walker B; other site 754477001138 D-loop; other site 754477001139 H-loop/switch region; other site 754477001140 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 754477001141 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 754477001142 acyl-activating enzyme (AAE) consensus motif; other site 754477001143 active site 754477001144 AMP binding site [chemical binding]; other site 754477001145 substrate binding site [chemical binding]; other site 754477001146 salicylate synthase; Region: salicyl_syn; TIGR03494 754477001147 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 754477001148 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 754477001149 Condensation domain; Region: Condensation; pfam00668 754477001150 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 754477001151 Nonribosomal peptide synthase; Region: NRPS; pfam08415 754477001152 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 754477001153 acyl-activating enzyme (AAE) consensus motif; other site 754477001154 AMP binding site [chemical binding]; other site 754477001155 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 754477001156 Condensation domain; Region: Condensation; pfam00668 754477001157 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 754477001158 Nonribosomal peptide synthase; Region: NRPS; pfam08415 754477001159 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 754477001160 acyl-activating enzyme (AAE) consensus motif; other site 754477001161 AMP binding site [chemical binding]; other site 754477001162 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 754477001163 Condensation domain; Region: Condensation; pfam00668 754477001164 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 754477001165 Nonribosomal peptide synthase; Region: NRPS; pfam08415 754477001166 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 754477001167 acyl-activating enzyme (AAE) consensus motif; other site 754477001168 AMP binding site [chemical binding]; other site 754477001169 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 754477001170 Condensation domain; Region: Condensation; pfam00668 754477001171 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 754477001172 Nonribosomal peptide synthase; Region: NRPS; pfam08415 754477001173 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 754477001174 acyl-activating enzyme (AAE) consensus motif; other site 754477001175 AMP binding site [chemical binding]; other site 754477001176 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 754477001177 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 754477001178 putative NAD(P) binding site [chemical binding]; other site 754477001179 active site 754477001180 putative substrate binding site [chemical binding]; other site 754477001181 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 754477001182 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 754477001183 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 754477001184 intersubunit interface [polypeptide binding]; other site 754477001185 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 754477001186 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 754477001187 ABC-ATPase subunit interface; other site 754477001188 dimer interface [polypeptide binding]; other site 754477001189 putative PBP binding regions; other site 754477001190 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 754477001191 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 754477001192 ABC-ATPase subunit interface; other site 754477001193 dimer interface [polypeptide binding]; other site 754477001194 putative PBP binding regions; other site 754477001195 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 754477001196 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 754477001197 Walker A/P-loop; other site 754477001198 ATP binding site [chemical binding]; other site 754477001199 Q-loop/lid; other site 754477001200 ABC transporter signature motif; other site 754477001201 Walker B; other site 754477001202 D-loop; other site 754477001203 H-loop/switch region; other site 754477001204 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 754477001205 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 754477001206 Walker A/P-loop; other site 754477001207 ATP binding site [chemical binding]; other site 754477001208 Q-loop/lid; other site 754477001209 ABC transporter signature motif; other site 754477001210 Walker B; other site 754477001211 D-loop; other site 754477001212 H-loop/switch region; other site 754477001213 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 754477001214 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 754477001215 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 754477001216 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 754477001217 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 754477001218 Zn binding site [ion binding]; other site 754477001219 Phosphopantetheine attachment site; Region: PP-binding; cl09936 754477001220 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 754477001221 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477001222 N-terminal plug; other site 754477001223 ligand-binding site [chemical binding]; other site 754477001224 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 754477001225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 754477001226 NAD(P) binding site [chemical binding]; other site 754477001227 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 754477001228 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 754477001229 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 754477001230 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 754477001231 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 754477001232 ABC transporter; Region: ABC_tran_2; pfam12848 754477001233 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 754477001234 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 754477001235 active site 754477001236 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 754477001237 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 754477001238 active site 754477001239 motif I; other site 754477001240 motif II; other site 754477001241 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 754477001242 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 754477001243 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 754477001244 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 754477001245 active site 754477001246 homodimer interface [polypeptide binding]; other site 754477001247 catalytic site [active] 754477001248 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 754477001249 active site 754477001250 tetramer interface; other site 754477001251 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477001252 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477001253 metal binding site [ion binding]; metal-binding site 754477001254 active site 754477001255 I-site; other site 754477001256 ATP-grasp domain; Region: ATP-grasp_4; cl17255 754477001257 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 754477001258 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 754477001259 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 754477001260 acyl-activating enzyme (AAE) consensus motif; other site 754477001261 active site 754477001262 CoA binding site [chemical binding]; other site 754477001263 AMP binding site [chemical binding]; other site 754477001264 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 754477001265 TRAM domain; Region: TRAM; pfam01938 754477001266 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 754477001267 S-adenosylmethionine binding site [chemical binding]; other site 754477001268 cysteine synthase B; Region: cysM; TIGR01138 754477001269 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 754477001270 dimer interface [polypeptide binding]; other site 754477001271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477001272 catalytic residue [active] 754477001273 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 754477001274 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 754477001275 active site 754477001276 hydrophilic channel; other site 754477001277 dimerization interface [polypeptide binding]; other site 754477001278 catalytic residues [active] 754477001279 active site lid [active] 754477001280 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 754477001281 Recombination protein O N terminal; Region: RecO_N; pfam11967 754477001282 Recombination protein O C terminal; Region: RecO_C; pfam02565 754477001283 GTPase Era; Reviewed; Region: era; PRK00089 754477001284 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 754477001285 G1 box; other site 754477001286 GTP/Mg2+ binding site [chemical binding]; other site 754477001287 Switch I region; other site 754477001288 G2 box; other site 754477001289 Switch II region; other site 754477001290 G3 box; other site 754477001291 G4 box; other site 754477001292 G5 box; other site 754477001293 KH domain; Region: KH_2; pfam07650 754477001294 ribonuclease III; Reviewed; Region: rnc; PRK00102 754477001295 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 754477001296 dimerization interface [polypeptide binding]; other site 754477001297 active site 754477001298 metal binding site [ion binding]; metal-binding site 754477001299 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 754477001300 dsRNA binding site [nucleotide binding]; other site 754477001301 signal peptidase I; Provisional; Region: PRK10861 754477001302 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 754477001303 Catalytic site [active] 754477001304 GTP-binding protein LepA; Provisional; Region: PRK05433 754477001305 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 754477001306 G1 box; other site 754477001307 putative GEF interaction site [polypeptide binding]; other site 754477001308 GTP/Mg2+ binding site [chemical binding]; other site 754477001309 Switch I region; other site 754477001310 G2 box; other site 754477001311 G3 box; other site 754477001312 Switch II region; other site 754477001313 G4 box; other site 754477001314 G5 box; other site 754477001315 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 754477001316 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 754477001317 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 754477001318 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 754477001319 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477001320 N-terminal plug; other site 754477001321 ligand-binding site [chemical binding]; other site 754477001322 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 754477001323 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 754477001324 dimerization interface [polypeptide binding]; other site 754477001325 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 754477001326 dimer interface [polypeptide binding]; other site 754477001327 phosphorylation site [posttranslational modification] 754477001328 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 754477001329 ATP binding site [chemical binding]; other site 754477001330 Mg2+ binding site [ion binding]; other site 754477001331 G-X-G motif; other site 754477001332 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 754477001333 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 754477001334 active site 754477001335 phosphorylation site [posttranslational modification] 754477001336 intermolecular recognition site; other site 754477001337 dimerization interface [polypeptide binding]; other site 754477001338 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 754477001339 DNA binding site [nucleotide binding] 754477001340 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 754477001341 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 754477001342 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 754477001343 protein binding site [polypeptide binding]; other site 754477001344 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 754477001345 protein binding site [polypeptide binding]; other site 754477001346 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 754477001347 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 754477001348 anti-sigma E factor; Provisional; Region: rseB; PRK09455 754477001349 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 754477001350 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 754477001351 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 754477001352 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 754477001353 DNA binding residues [nucleotide binding] 754477001354 L-aspartate oxidase; Provisional; Region: PRK09077 754477001355 L-aspartate oxidase; Provisional; Region: PRK06175 754477001356 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 754477001357 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 754477001358 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 754477001359 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 754477001360 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 754477001361 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 754477001362 active site 754477001363 phosphorylation site [posttranslational modification] 754477001364 intermolecular recognition site; other site 754477001365 dimerization interface [polypeptide binding]; other site 754477001366 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 754477001367 Walker A motif; other site 754477001368 ATP binding site [chemical binding]; other site 754477001369 Walker B motif; other site 754477001370 arginine finger; other site 754477001371 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 754477001372 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 754477001373 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 754477001374 dimer interface [polypeptide binding]; other site 754477001375 phosphorylation site [posttranslational modification] 754477001376 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 754477001377 ATP binding site [chemical binding]; other site 754477001378 Mg2+ binding site [ion binding]; other site 754477001379 G-X-G motif; other site 754477001380 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 754477001381 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 754477001382 G1 box; other site 754477001383 putative GEF interaction site [polypeptide binding]; other site 754477001384 GTP/Mg2+ binding site [chemical binding]; other site 754477001385 Switch I region; other site 754477001386 G2 box; other site 754477001387 G3 box; other site 754477001388 Switch II region; other site 754477001389 G4 box; other site 754477001390 G5 box; other site 754477001391 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 754477001392 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 754477001393 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 754477001394 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 754477001395 active site 754477001396 dimerization interface [polypeptide binding]; other site 754477001397 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 754477001398 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 754477001399 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 754477001400 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 754477001401 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 754477001402 Nitrogen regulatory protein P-II; Region: P-II; smart00938 754477001403 NAD synthetase; Provisional; Region: PRK13981 754477001404 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 754477001405 multimer interface [polypeptide binding]; other site 754477001406 active site 754477001407 catalytic triad [active] 754477001408 protein interface 1 [polypeptide binding]; other site 754477001409 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 754477001410 homodimer interface [polypeptide binding]; other site 754477001411 NAD binding pocket [chemical binding]; other site 754477001412 ATP binding pocket [chemical binding]; other site 754477001413 Mg binding site [ion binding]; other site 754477001414 active-site loop [active] 754477001415 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 754477001416 CoA binding domain; Region: CoA_binding; smart00881 754477001417 CoA-ligase; Region: Ligase_CoA; pfam00549 754477001418 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 754477001419 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 754477001420 CoA-ligase; Region: Ligase_CoA; pfam00549 754477001421 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 754477001422 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 754477001423 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 754477001424 putative active site [active] 754477001425 dimerization interface [polypeptide binding]; other site 754477001426 putative tRNAtyr binding site [nucleotide binding]; other site 754477001427 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 754477001428 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 754477001429 dimerization interface [polypeptide binding]; other site 754477001430 PAS domain; Region: PAS_9; pfam13426 754477001431 PAS domain; Region: PAS_9; pfam13426 754477001432 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477001433 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477001434 metal binding site [ion binding]; metal-binding site 754477001435 active site 754477001436 I-site; other site 754477001437 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 754477001438 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 754477001439 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 754477001440 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 754477001441 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 754477001442 metal-binding site [ion binding] 754477001443 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 754477001444 Soluble P-type ATPase [General function prediction only]; Region: COG4087 754477001445 FixH; Region: FixH; pfam05751 754477001446 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 754477001447 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 754477001448 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 754477001449 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 754477001450 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 754477001451 Domain of unknown function DUF21; Region: DUF21; pfam01595 754477001452 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 754477001453 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 754477001454 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 754477001455 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 754477001456 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 754477001457 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 754477001458 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 754477001459 Low-spin heme binding site [chemical binding]; other site 754477001460 Putative water exit pathway; other site 754477001461 Binuclear center (active site) [active] 754477001462 Putative proton exit pathway; other site 754477001463 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cl00182 754477001464 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 754477001465 IHF dimer interface [polypeptide binding]; other site 754477001466 IHF - DNA interface [nucleotide binding]; other site 754477001467 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 754477001468 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 754477001469 RNA binding site [nucleotide binding]; other site 754477001470 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 754477001471 RNA binding site [nucleotide binding]; other site 754477001472 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 754477001473 RNA binding site [nucleotide binding]; other site 754477001474 S1_RPS1_repeat_ec4: 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_ec4; cd05689 754477001475 RNA binding site [nucleotide binding]; other site 754477001476 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 754477001477 RNA binding site [nucleotide binding]; other site 754477001478 S1_RPS1_repeat_ec6: 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_ec6; cd05691 754477001479 RNA binding site [nucleotide binding]; other site 754477001480 cytidylate kinase; Provisional; Region: cmk; PRK00023 754477001481 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 754477001482 CMP-binding site; other site 754477001483 The sites determining sugar specificity; other site 754477001484 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 754477001485 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 754477001486 hinge; other site 754477001487 active site 754477001488 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 754477001489 prephenate dehydrogenase; Validated; Region: PRK08507 754477001490 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 754477001491 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 754477001492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477001493 homodimer interface [polypeptide binding]; other site 754477001494 catalytic residue [active] 754477001495 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 754477001496 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 754477001497 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 754477001498 active site 754477001499 HIGH motif; other site 754477001500 nucleotide binding site [chemical binding]; other site 754477001501 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 754477001502 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 754477001503 active site 754477001504 KMSKS motif; other site 754477001505 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 754477001506 tRNA binding surface [nucleotide binding]; other site 754477001507 anticodon binding site; other site 754477001508 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 754477001509 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 754477001510 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_10; cd04623 754477001511 FOG: CBS domain [General function prediction only]; Region: COG0517 754477001512 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 754477001513 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 754477001514 putative molybdopterin cofactor binding site [chemical binding]; other site 754477001515 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 754477001516 putative molybdopterin cofactor binding site; other site 754477001517 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 754477001518 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 754477001519 G1 box; other site 754477001520 putative GEF interaction site [polypeptide binding]; other site 754477001521 GTP/Mg2+ binding site [chemical binding]; other site 754477001522 Switch I region; other site 754477001523 G2 box; other site 754477001524 G3 box; other site 754477001525 Switch II region; other site 754477001526 G4 box; other site 754477001527 G5 box; other site 754477001528 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 754477001529 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 754477001530 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 754477001531 Catalytic site [active] 754477001532 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 754477001533 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 754477001534 N-acetyl-D-glucosamine binding site [chemical binding]; other site 754477001535 catalytic residue [active] 754477001536 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 754477001537 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 754477001538 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 754477001539 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 754477001540 TraF-like protein; Region: TraF-like; TIGR02740 754477001541 F plasmid transfer operon protein; Region: TraF; pfam13728 754477001542 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 754477001543 AAA domain; Region: AAA_30; pfam13604 754477001544 Family description; Region: UvrD_C_2; pfam13538 754477001545 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 754477001546 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 754477001547 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 754477001548 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 754477001549 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 754477001550 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 754477001551 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 754477001552 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 754477001553 Putative transposase; Region: Y2_Tnp; pfam04986 754477001554 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 754477001555 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 754477001556 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 754477001557 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 754477001558 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 754477001559 active site 754477001560 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 754477001561 HlyD family secretion protein; Region: HlyD_3; pfam13437 754477001562 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 754477001563 HlyD family secretion protein; Region: HlyD_3; pfam13437 754477001564 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 754477001565 HlyD family secretion protein; Region: HlyD_3; pfam13437 754477001566 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 754477001567 VP2/VP3; Provisional; Region: PHA02616 754477001568 VCBS repeat; Region: VCBS_repeat; TIGR01965 754477001569 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 754477001570 Protein of unknown function (DUF3461); Region: DUF3461; cl10125 754477001571 SpoVR family protein; Provisional; Region: PRK11767 754477001572 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 754477001573 haemagglutination activity domain; Region: Haemagg_act; smart00912 754477001574 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 754477001575 AAA domain; Region: AAA_30; pfam13604 754477001576 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; pfam08273 754477001577 Toprim domain; Region: Toprim_3; pfam13362 754477001578 hypothetical protein; Reviewed; Region: PRK00024 754477001579 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 754477001580 MPN+ (JAMM) motif; other site 754477001581 Zinc-binding site [ion binding]; other site 754477001582 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 754477001583 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 754477001584 metal ion-dependent adhesion site (MIDAS); other site 754477001585 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 754477001586 WGR domain; Region: WGR; cl01581 754477001587 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 754477001588 Walker A motif; other site 754477001589 ATP binding site [chemical binding]; other site 754477001590 Walker B motif; other site 754477001591 arginine finger; other site 754477001592 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 754477001593 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 754477001594 RecT family; Region: RecT; cl04285 754477001595 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 754477001596 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 754477001597 dimer interface [polypeptide binding]; other site 754477001598 ssDNA binding site [nucleotide binding]; other site 754477001599 tetramer (dimer of dimers) interface [polypeptide binding]; other site 754477001600 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 754477001601 active site 754477001602 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 754477001603 active site 754477001604 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 754477001605 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 754477001606 active site 754477001607 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 754477001608 FeS/SAM binding site; other site 754477001609 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14876 754477001610 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14876 754477001611 TraU protein; Region: TraU; pfam06834 754477001612 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 754477001613 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 754477001614 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 754477001615 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 754477001616 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 754477001617 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 754477001618 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 754477001619 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 754477001620 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 754477001621 dimerization domain [polypeptide binding]; other site 754477001622 dimer interface [polypeptide binding]; other site 754477001623 catalytic residues [active] 754477001624 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 754477001625 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 754477001626 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 754477001627 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 754477001628 TraK protein; Region: TraK; pfam06586 754477001629 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 754477001630 TraE protein; Region: TraE; cl05060 754477001631 TraL protein; Region: TraL; cl06278 754477001632 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 754477001633 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 754477001634 non-specific DNA binding site [nucleotide binding]; other site 754477001635 salt bridge; other site 754477001636 sequence-specific DNA binding site [nucleotide binding]; other site 754477001637 Domain of unknown function (DUF4400); Region: DUF4400; pfam14348 754477001638 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 754477001639 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 754477001640 Putative helicase; Region: TraI_2; pfam07514 754477001641 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 754477001642 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 754477001643 putative DNA binding site [nucleotide binding]; other site 754477001644 putative Zn2+ binding site [ion binding]; other site 754477001645 Nuclease-related domain; Region: NERD; pfam08378 754477001646 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 754477001647 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 754477001648 active site 754477001649 ATP binding site [chemical binding]; other site 754477001650 substrate binding site [chemical binding]; other site 754477001651 activation loop (A-loop); other site 754477001652 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 754477001653 active site 754477001654 ATP binding site [chemical binding]; other site 754477001655 AAA domain; Region: AAA_11; pfam13086 754477001656 Part of AAA domain; Region: AAA_19; pfam13245 754477001657 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 754477001658 AAA domain; Region: AAA_12; pfam13087 754477001659 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 754477001660 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 754477001661 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 754477001662 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 754477001663 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 754477001664 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 754477001665 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 754477001666 S-adenosylmethionine binding site [chemical binding]; other site 754477001667 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 754477001668 WYL domain; Region: WYL; pfam13280 754477001669 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 754477001670 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 754477001671 active site 754477001672 catalytic site [active] 754477001673 substrate binding site [chemical binding]; other site 754477001674 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 754477001675 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 754477001676 Catalytic site [active] 754477001677 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 754477001678 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 754477001679 active site 754477001680 DNA binding site [nucleotide binding] 754477001681 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 754477001682 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 754477001683 PRTRC system protein D; Region: PRTRC_D; TIGR03739 754477001684 Mg binding site [ion binding]; other site 754477001685 nucleotide binding site [chemical binding]; other site 754477001686 putative protofilament interface [polypeptide binding]; other site 754477001687 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 754477001688 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 754477001689 active site 754477001690 Int/Topo IB signature motif; other site 754477001691 GAF domain; Region: GAF; pfam01590 754477001692 Phytochrome region; Region: PHY; pfam00360 754477001693 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477001694 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477001695 metal binding site [ion binding]; metal-binding site 754477001696 active site 754477001697 I-site; other site 754477001698 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 754477001699 Ligand Binding Site [chemical binding]; other site 754477001700 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 754477001701 Ligand Binding Site [chemical binding]; other site 754477001702 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 754477001703 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 754477001704 Sulfate transporter family; Region: Sulfate_transp; pfam00916 754477001705 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 754477001706 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 754477001707 Mechanosensitive ion channel; Region: MS_channel; pfam00924 754477001708 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 754477001709 MarR family; Region: MarR_2; pfam12802 754477001710 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 754477001711 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 754477001712 putative substrate translocation pore; other site 754477001713 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 754477001714 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 754477001715 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 754477001716 HlyD family secretion protein; Region: HlyD_3; pfam13437 754477001717 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 754477001718 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 754477001719 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 754477001720 Walker A motif; other site 754477001721 ATP binding site [chemical binding]; other site 754477001722 Walker B motif; other site 754477001723 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 754477001724 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 754477001725 RNase E interface [polypeptide binding]; other site 754477001726 trimer interface [polypeptide binding]; other site 754477001727 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 754477001728 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 754477001729 RNase E interface [polypeptide binding]; other site 754477001730 trimer interface [polypeptide binding]; other site 754477001731 active site 754477001732 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 754477001733 putative nucleic acid binding region [nucleotide binding]; other site 754477001734 G-X-X-G motif; other site 754477001735 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 754477001736 RNA binding site [nucleotide binding]; other site 754477001737 domain interface; other site 754477001738 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 754477001739 16S/18S rRNA binding site [nucleotide binding]; other site 754477001740 S13e-L30e interaction site [polypeptide binding]; other site 754477001741 25S rRNA binding site [nucleotide binding]; other site 754477001742 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 754477001743 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 754477001744 RNA binding site [nucleotide binding]; other site 754477001745 active site 754477001746 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 754477001747 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 754477001748 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 754477001749 translation initiation factor IF-2; Region: IF-2; TIGR00487 754477001750 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 754477001751 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 754477001752 G1 box; other site 754477001753 putative GEF interaction site [polypeptide binding]; other site 754477001754 GTP/Mg2+ binding site [chemical binding]; other site 754477001755 Switch I region; other site 754477001756 G2 box; other site 754477001757 G3 box; other site 754477001758 Switch II region; other site 754477001759 G4 box; other site 754477001760 G5 box; other site 754477001761 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 754477001762 Translation-initiation factor 2; Region: IF-2; pfam11987 754477001763 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 754477001764 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 754477001765 NusA N-terminal domain; Region: NusA_N; pfam08529 754477001766 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 754477001767 RNA binding site [nucleotide binding]; other site 754477001768 homodimer interface [polypeptide binding]; other site 754477001769 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 754477001770 G-X-X-G motif; other site 754477001771 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 754477001772 G-X-X-G motif; other site 754477001773 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 754477001774 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 754477001775 hypothetical protein; Provisional; Region: PRK14641 754477001776 ribosome maturation protein RimP; Reviewed; Region: PRK00092 754477001777 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 754477001778 putative oligomer interface [polypeptide binding]; other site 754477001779 putative RNA binding site [nucleotide binding]; other site 754477001780 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 754477001781 Flavodoxin; Region: Flavodoxin_1; pfam00258 754477001782 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 754477001783 FAD binding pocket [chemical binding]; other site 754477001784 FAD binding motif [chemical binding]; other site 754477001785 catalytic residues [active] 754477001786 NAD binding pocket [chemical binding]; other site 754477001787 phosphate binding motif [ion binding]; other site 754477001788 beta-alpha-beta structure motif; other site 754477001789 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 754477001790 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 754477001791 active site 754477001792 dimer interface [polypeptide binding]; other site 754477001793 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 754477001794 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 754477001795 active site 754477001796 FMN binding site [chemical binding]; other site 754477001797 substrate binding site [chemical binding]; other site 754477001798 3Fe-4S cluster binding site [ion binding]; other site 754477001799 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 754477001800 domain_subunit interface; other site 754477001801 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 754477001802 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 754477001803 active site 754477001804 phosphorylation site [posttranslational modification] 754477001805 intermolecular recognition site; other site 754477001806 dimerization interface [polypeptide binding]; other site 754477001807 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 754477001808 Walker A motif; other site 754477001809 ATP binding site [chemical binding]; other site 754477001810 Walker B motif; other site 754477001811 arginine finger; other site 754477001812 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 754477001813 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 754477001814 PAS domain; Region: PAS; smart00091 754477001815 putative active site [active] 754477001816 heme pocket [chemical binding]; other site 754477001817 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 754477001818 dimer interface [polypeptide binding]; other site 754477001819 phosphorylation site [posttranslational modification] 754477001820 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 754477001821 ATP binding site [chemical binding]; other site 754477001822 Mg2+ binding site [ion binding]; other site 754477001823 G-X-G motif; other site 754477001824 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 754477001825 glutamine synthetase; Provisional; Region: glnA; PRK09469 754477001826 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 754477001827 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 754477001828 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 754477001829 CPxP motif; other site 754477001830 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 754477001831 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 754477001832 Ligand Binding Site [chemical binding]; other site 754477001833 protease TldD; Provisional; Region: tldD; PRK10735 754477001834 TIGR02099 family protein; Region: TIGR02099 754477001835 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 754477001836 ribonuclease G; Provisional; Region: PRK11712 754477001837 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 754477001838 homodimer interface [polypeptide binding]; other site 754477001839 oligonucleotide binding site [chemical binding]; other site 754477001840 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 754477001841 dimer interface [polypeptide binding]; other site 754477001842 active site 754477001843 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 754477001844 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 754477001845 Uncharacterized conserved protein [Function unknown]; Region: COG1434 754477001846 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 754477001847 putative active site [active] 754477001848 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 754477001849 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 754477001850 active site 754477001851 (T/H)XGH motif; other site 754477001852 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 754477001853 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 754477001854 putative catalytic cysteine [active] 754477001855 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 754477001856 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 754477001857 Lipopolysaccharide-assembly; Region: LptE; cl01125 754477001858 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 754477001859 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 754477001860 HIGH motif; other site 754477001861 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 754477001862 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 754477001863 active site 754477001864 KMSKS motif; other site 754477001865 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 754477001866 tRNA binding surface [nucleotide binding]; other site 754477001867 H-NS histone family; Region: Histone_HNS; pfam00816 754477001868 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 754477001869 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 754477001870 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 754477001871 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 754477001872 active site 754477001873 (T/H)XGH motif; other site 754477001874 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 754477001875 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 754477001876 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 754477001877 S-adenosylmethionine binding site [chemical binding]; other site 754477001878 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 754477001879 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 754477001880 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 754477001881 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 754477001882 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 754477001883 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 754477001884 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 754477001885 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 754477001886 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 754477001887 P loop; other site 754477001888 GTP binding site [chemical binding]; other site 754477001889 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 754477001890 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477001891 Walker A/P-loop; other site 754477001892 ATP binding site [chemical binding]; other site 754477001893 Q-loop/lid; other site 754477001894 ABC transporter signature motif; other site 754477001895 Walker B; other site 754477001896 D-loop; other site 754477001897 H-loop/switch region; other site 754477001898 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 754477001899 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 754477001900 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 754477001901 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 754477001902 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 754477001903 DNA binding residues [nucleotide binding] 754477001904 Ferredoxin [Energy production and conversion]; Region: COG1146 754477001905 4Fe-4S binding domain; Region: Fer4; cl02805 754477001906 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 754477001907 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 754477001908 tetratricopeptide repeat protein; Provisional; Region: PRK11788 754477001909 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 754477001910 binding surface 754477001911 TPR motif; other site 754477001912 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 754477001913 ArsC family; Region: ArsC; pfam03960 754477001914 catalytic residues [active] 754477001915 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 754477001916 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 754477001917 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 754477001918 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 754477001919 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 754477001920 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 754477001921 pantothenate kinase; Reviewed; Region: PRK13328 754477001922 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 754477001923 MASE1; Region: MASE1; cl17823 754477001924 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 754477001925 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 754477001926 PAS domain; Region: PAS_9; pfam13426 754477001927 putative active site [active] 754477001928 heme pocket [chemical binding]; other site 754477001929 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477001930 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477001931 metal binding site [ion binding]; metal-binding site 754477001932 active site 754477001933 I-site; other site 754477001934 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 754477001935 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14969 754477001936 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 754477001937 Walker A motif; other site 754477001938 ATP binding site [chemical binding]; other site 754477001939 Walker B motif; other site 754477001940 arginine finger; other site 754477001941 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 754477001942 hypothetical protein; Validated; Region: PRK00153 754477001943 recombination protein RecR; Reviewed; Region: recR; PRK00076 754477001944 RecR protein; Region: RecR; pfam02132 754477001945 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 754477001946 putative active site [active] 754477001947 putative metal-binding site [ion binding]; other site 754477001948 tetramer interface [polypeptide binding]; other site 754477001949 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 754477001950 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 754477001951 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 754477001952 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 754477001953 rRNA binding site [nucleotide binding]; other site 754477001954 predicted 30S ribosome binding site; other site 754477001955 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 754477001956 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 754477001957 Uncharacterized conserved protein [Function unknown]; Region: COG2850 754477001958 Cupin-like domain; Region: Cupin_8; pfam13621 754477001959 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 754477001960 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 754477001961 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 754477001962 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 754477001963 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 754477001964 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 754477001965 active site 754477001966 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 754477001967 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 754477001968 intersubunit interface [polypeptide binding]; other site 754477001969 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 754477001970 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 754477001971 Walker A/P-loop; other site 754477001972 ATP binding site [chemical binding]; other site 754477001973 Q-loop/lid; other site 754477001974 ABC transporter signature motif; other site 754477001975 Walker B; other site 754477001976 D-loop; other site 754477001977 H-loop/switch region; other site 754477001978 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 754477001979 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 754477001980 ABC-ATPase subunit interface; other site 754477001981 dimer interface [polypeptide binding]; other site 754477001982 putative PBP binding regions; other site 754477001983 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 754477001984 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 754477001985 active site residue [active] 754477001986 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 754477001987 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 754477001988 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 754477001989 active site 754477001990 MoxR-like ATPases [General function prediction only]; Region: COG0714 754477001991 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 754477001992 Walker A motif; other site 754477001993 ATP binding site [chemical binding]; other site 754477001994 Walker B motif; other site 754477001995 arginine finger; other site 754477001996 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 754477001997 Protein of unknown function DUF58; Region: DUF58; pfam01882 754477001998 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 754477001999 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 754477002000 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 754477002001 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 754477002002 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 754477002003 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 754477002004 putative ATP binding site [chemical binding]; other site 754477002005 putative substrate interface [chemical binding]; other site 754477002006 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 754477002007 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 754477002008 putative deacylase active site [active] 754477002009 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 754477002010 Mechanosensitive ion channel; Region: MS_channel; pfam00924 754477002011 Major Facilitator Superfamily; Region: MFS_1; pfam07690 754477002012 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 754477002013 putative substrate translocation pore; other site 754477002014 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 754477002015 Sodium Bile acid symporter family; Region: SBF; cl17470 754477002016 Low molecular weight phosphatase family; Region: LMWPc; cl00105 754477002017 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 754477002018 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 754477002019 dimerization interface [polypeptide binding]; other site 754477002020 putative DNA binding site [nucleotide binding]; other site 754477002021 putative Zn2+ binding site [ion binding]; other site 754477002022 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 754477002023 NADH(P)-binding; Region: NAD_binding_10; pfam13460 754477002024 NAD(P) binding site [chemical binding]; other site 754477002025 putative active site [active] 754477002026 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 754477002027 Paraquat-inducible protein A; Region: PqiA; pfam04403 754477002028 Paraquat-inducible protein A; Region: PqiA; pfam04403 754477002029 paraquat-inducible protein B; Provisional; Region: PRK10807 754477002030 mce related protein; Region: MCE; pfam02470 754477002031 mce related protein; Region: MCE; pfam02470 754477002032 mce related protein; Region: MCE; pfam02470 754477002033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 754477002034 Protein of unknown function (DUF330); Region: DUF330; pfam03886 754477002035 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 754477002036 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 754477002037 NAD(P) binding site [chemical binding]; other site 754477002038 catalytic residues [active] 754477002039 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 754477002040 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 754477002041 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 754477002042 active site 754477002043 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 754477002044 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 754477002045 inhibitor-cofactor binding pocket; inhibition site 754477002046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477002047 catalytic residue [active] 754477002048 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 754477002049 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 754477002050 metal binding site [ion binding]; metal-binding site 754477002051 dimer interface [polypeptide binding]; other site 754477002052 ferredoxin-NADP reductase; Provisional; Region: PRK10926 754477002053 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 754477002054 FAD binding pocket [chemical binding]; other site 754477002055 FAD binding motif [chemical binding]; other site 754477002056 phosphate binding motif [ion binding]; other site 754477002057 beta-alpha-beta structure motif; other site 754477002058 NAD binding pocket [chemical binding]; other site 754477002059 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 754477002060 Domain of unknown function (DUF202); Region: DUF202; pfam02656 754477002061 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 754477002062 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 754477002063 NlpE N-terminal domain; Region: NlpE; pfam04170 754477002064 META domain; Region: META; pfam03724 754477002065 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 754477002066 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 754477002067 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 754477002068 active site 754477002069 Riboflavin kinase; Region: Flavokinase; smart00904 754477002070 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 754477002071 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 754477002072 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 754477002073 substrate binding pocket [chemical binding]; other site 754477002074 chain length determination region; other site 754477002075 substrate-Mg2+ binding site; other site 754477002076 catalytic residues [active] 754477002077 aspartate-rich region 1; other site 754477002078 active site lid residues [active] 754477002079 aspartate-rich region 2; other site 754477002080 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 754477002081 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 754477002082 TPP-binding site; other site 754477002083 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 754477002084 PYR/PP interface [polypeptide binding]; other site 754477002085 dimer interface [polypeptide binding]; other site 754477002086 TPP binding site [chemical binding]; other site 754477002087 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 754477002088 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 754477002089 active site 754477002090 putative GTP cyclohydrolase; Provisional; Region: PRK13674 754477002091 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 754477002092 catalytic motif [active] 754477002093 Catalytic residue [active] 754477002094 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 754477002095 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 754477002096 GTP binding site; other site 754477002097 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 754477002098 Walker A motif; other site 754477002099 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 754477002100 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 754477002101 dimer interface [polypeptide binding]; other site 754477002102 putative functional site; other site 754477002103 putative MPT binding site; other site 754477002104 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 754477002105 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 754477002106 Ligand Binding Site [chemical binding]; other site 754477002107 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 754477002108 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 754477002109 dimer interface [polypeptide binding]; other site 754477002110 putative metal binding site [ion binding]; other site 754477002111 Predicted permeases [General function prediction only]; Region: RarD; COG2962 754477002112 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 754477002113 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 754477002114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477002115 homodimer interface [polypeptide binding]; other site 754477002116 catalytic residue [active] 754477002117 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 754477002118 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 754477002119 active site 754477002120 substrate binding site [chemical binding]; other site 754477002121 trimer interface [polypeptide binding]; other site 754477002122 CoA binding site [chemical binding]; other site 754477002123 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 754477002124 ArsC family; Region: ArsC; pfam03960 754477002125 putative catalytic residues [active] 754477002126 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 754477002127 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 754477002128 metal binding site [ion binding]; metal-binding site 754477002129 dimer interface [polypeptide binding]; other site 754477002130 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 754477002131 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 754477002132 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 754477002133 Predicted membrane protein [Function unknown]; Region: COG3671 754477002134 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 754477002135 malonic semialdehyde reductase; Provisional; Region: PRK10538 754477002136 putative NAD(P) binding site [chemical binding]; other site 754477002137 homodimer interface [polypeptide binding]; other site 754477002138 homotetramer interface [polypeptide binding]; other site 754477002139 active site 754477002140 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 754477002141 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 754477002142 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 754477002143 putative active site [active] 754477002144 putative substrate binding site [chemical binding]; other site 754477002145 putative cosubstrate binding site; other site 754477002146 catalytic site [active] 754477002147 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 754477002148 homodimer interface [polypeptide binding]; other site 754477002149 chemical substrate binding site [chemical binding]; other site 754477002150 oligomer interface [polypeptide binding]; other site 754477002151 metal binding site [ion binding]; metal-binding site 754477002152 PGAP1-like protein; Region: PGAP1; pfam07819 754477002153 acyl-CoA esterase; Provisional; Region: PRK10673 754477002154 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 754477002155 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 754477002156 dimer interface [polypeptide binding]; other site 754477002157 active site 754477002158 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 754477002159 active site 1 [active] 754477002160 dimer interface [polypeptide binding]; other site 754477002161 active site 2 [active] 754477002162 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 754477002163 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 754477002164 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 754477002165 active site 754477002166 phosphorylation site [posttranslational modification] 754477002167 intermolecular recognition site; other site 754477002168 dimerization interface [polypeptide binding]; other site 754477002169 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 754477002170 DNA binding residues [nucleotide binding] 754477002171 dimerization interface [polypeptide binding]; other site 754477002172 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 754477002173 HlyD family secretion protein; Region: HlyD_3; pfam13437 754477002174 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 754477002175 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 754477002176 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 754477002177 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 754477002178 Walker A/P-loop; other site 754477002179 ATP binding site [chemical binding]; other site 754477002180 Q-loop/lid; other site 754477002181 ABC transporter signature motif; other site 754477002182 Walker B; other site 754477002183 D-loop; other site 754477002184 H-loop/switch region; other site 754477002185 GTP-binding protein Der; Reviewed; Region: PRK00093 754477002186 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 754477002187 G1 box; other site 754477002188 GTP/Mg2+ binding site [chemical binding]; other site 754477002189 Switch I region; other site 754477002190 G2 box; other site 754477002191 Switch II region; other site 754477002192 G3 box; other site 754477002193 G4 box; other site 754477002194 G5 box; other site 754477002195 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 754477002196 G1 box; other site 754477002197 GTP/Mg2+ binding site [chemical binding]; other site 754477002198 Switch I region; other site 754477002199 G2 box; other site 754477002200 G3 box; other site 754477002201 Switch II region; other site 754477002202 G4 box; other site 754477002203 G5 box; other site 754477002204 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 754477002205 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 754477002206 Trp docking motif [polypeptide binding]; other site 754477002207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 754477002208 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 754477002209 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 754477002210 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 754477002211 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 754477002212 active site 754477002213 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 754477002214 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 754477002215 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 754477002216 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 754477002217 trimer interface [polypeptide binding]; other site 754477002218 active site 754477002219 UDP-GlcNAc binding site [chemical binding]; other site 754477002220 lipid binding site [chemical binding]; lipid-binding site 754477002221 periplasmic chaperone; Provisional; Region: PRK10780 754477002222 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 754477002223 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 754477002224 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 754477002225 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 754477002226 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 754477002227 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 754477002228 Surface antigen; Region: Bac_surface_Ag; pfam01103 754477002229 zinc metallopeptidase RseP; Provisional; Region: PRK10779 754477002230 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 754477002231 active site 754477002232 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 754477002233 protein binding site [polypeptide binding]; other site 754477002234 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 754477002235 protein binding site [polypeptide binding]; other site 754477002236 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 754477002237 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 754477002238 putative substrate binding region [chemical binding]; other site 754477002239 putative substrate binding region [chemical binding]; other site 754477002240 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 754477002241 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 754477002242 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 754477002243 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 754477002244 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 754477002245 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 754477002246 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 754477002247 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 754477002248 catalytic residue [active] 754477002249 putative FPP diphosphate binding site; other site 754477002250 putative FPP binding hydrophobic cleft; other site 754477002251 dimer interface [polypeptide binding]; other site 754477002252 putative IPP diphosphate binding site; other site 754477002253 ribosome recycling factor; Reviewed; Region: frr; PRK00083 754477002254 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 754477002255 hinge region; other site 754477002256 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 754477002257 putative nucleotide binding site [chemical binding]; other site 754477002258 uridine monophosphate binding site [chemical binding]; other site 754477002259 homohexameric interface [polypeptide binding]; other site 754477002260 elongation factor Ts; Provisional; Region: tsf; PRK09377 754477002261 UBA/TS-N domain; Region: UBA; pfam00627 754477002262 Elongation factor TS; Region: EF_TS; pfam00889 754477002263 Elongation factor TS; Region: EF_TS; pfam00889 754477002264 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 754477002265 rRNA interaction site [nucleotide binding]; other site 754477002266 S8 interaction site; other site 754477002267 putative laminin-1 binding site; other site 754477002268 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 754477002269 active site 754477002270 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 754477002271 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 754477002272 metal binding triad; other site 754477002273 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 754477002274 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 754477002275 Zn2+ binding site [ion binding]; other site 754477002276 Mg2+ binding site [ion binding]; other site 754477002277 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 754477002278 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 754477002279 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 754477002280 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 754477002281 Bacterial sugar transferase; Region: Bac_transf; pfam02397 754477002282 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 754477002283 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 754477002284 putative NAD(P) binding site [chemical binding]; other site 754477002285 active site 754477002286 putative substrate binding site [chemical binding]; other site 754477002287 phosphomannomutase CpsG; Provisional; Region: PRK15414 754477002288 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 754477002289 active site 754477002290 substrate binding site [chemical binding]; other site 754477002291 metal binding site [ion binding]; metal-binding site 754477002292 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 754477002293 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 754477002294 active site 754477002295 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 754477002296 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 754477002297 active site 754477002298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 754477002299 active site 754477002300 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; cl07929 754477002301 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 754477002302 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 754477002303 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 754477002304 active site 754477002305 colanic acid exporter; Provisional; Region: PRK10459 754477002306 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 754477002307 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 754477002308 Coenzyme A binding pocket [chemical binding]; other site 754477002309 WbqC-like protein family; Region: WbqC; pfam08889 754477002310 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 754477002311 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 754477002312 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 754477002313 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 754477002314 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 754477002315 inhibitor-cofactor binding pocket; inhibition site 754477002316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477002317 catalytic residue [active] 754477002318 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 754477002319 putative DNA binding site [nucleotide binding]; other site 754477002320 putative Zn2+ binding site [ion binding]; other site 754477002321 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 754477002322 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 754477002323 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 754477002324 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 754477002325 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 754477002326 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 754477002327 glutaminase active site [active] 754477002328 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 754477002329 dimer interface [polypeptide binding]; other site 754477002330 active site 754477002331 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 754477002332 dimer interface [polypeptide binding]; other site 754477002333 active site 754477002334 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 754477002335 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 754477002336 NAD(P) binding site [chemical binding]; other site 754477002337 homodimer interface [polypeptide binding]; other site 754477002338 substrate binding site [chemical binding]; other site 754477002339 active site 754477002340 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 754477002341 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 754477002342 NADP binding site [chemical binding]; other site 754477002343 active site 754477002344 putative substrate binding site [chemical binding]; other site 754477002345 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 754477002346 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 754477002347 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 754477002348 substrate binding site; other site 754477002349 tetramer interface; other site 754477002350 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 754477002351 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 754477002352 NAD binding site [chemical binding]; other site 754477002353 substrate binding site [chemical binding]; other site 754477002354 homodimer interface [polypeptide binding]; other site 754477002355 active site 754477002356 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 754477002357 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 754477002358 putative NAD(P) binding site [chemical binding]; other site 754477002359 putative substrate binding site [chemical binding]; other site 754477002360 catalytic Zn binding site [ion binding]; other site 754477002361 structural Zn binding site [ion binding]; other site 754477002362 dimer interface [polypeptide binding]; other site 754477002363 Transcriptional regulator [Transcription]; Region: LysR; COG0583 754477002364 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 754477002365 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 754477002366 dimerization interface [polypeptide binding]; other site 754477002367 substrate binding pocket [chemical binding]; other site 754477002368 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 754477002369 Major Facilitator Superfamily; Region: MFS_1; pfam07690 754477002370 putative substrate translocation pore; other site 754477002371 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 754477002372 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 754477002373 HlyD family secretion protein; Region: HlyD_3; pfam13437 754477002374 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 754477002375 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 754477002376 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 754477002377 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 754477002378 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 754477002379 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 754477002380 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 754477002381 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 754477002382 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 754477002383 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 754477002384 active site 754477002385 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 754477002386 metal binding site 2 [ion binding]; metal-binding site 754477002387 putative DNA binding helix; other site 754477002388 metal binding site 1 [ion binding]; metal-binding site 754477002389 dimer interface [polypeptide binding]; other site 754477002390 structural Zn2+ binding site [ion binding]; other site 754477002391 Fe-S metabolism associated domain; Region: SufE; cl00951 754477002392 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 754477002393 Sodium Bile acid symporter family; Region: SBF; cl17470 754477002394 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 754477002395 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 754477002396 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 754477002397 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 754477002398 active site 754477002399 dimer interface [polypeptide binding]; other site 754477002400 motif 1; other site 754477002401 motif 2; other site 754477002402 motif 3; other site 754477002403 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 754477002404 anticodon binding site; other site 754477002405 dihydroorotase; Validated; Region: PRK09060 754477002406 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 754477002407 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 754477002408 active site 754477002409 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 754477002410 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 754477002411 FAD binding domain; Region: FAD_binding_4; pfam01565 754477002412 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 754477002413 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 754477002414 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 754477002415 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 754477002416 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 754477002417 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 754477002418 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477002419 N-terminal plug; other site 754477002420 ligand-binding site [chemical binding]; other site 754477002421 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 754477002422 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 754477002423 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 754477002424 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 754477002425 NAD(P) binding site [chemical binding]; other site 754477002426 catalytic residues [active] 754477002427 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 754477002428 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 754477002429 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 754477002430 homodimer interface [polypeptide binding]; other site 754477002431 NADP binding site [chemical binding]; other site 754477002432 substrate binding site [chemical binding]; other site 754477002433 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 754477002434 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 754477002435 active site 754477002436 HIGH motif; other site 754477002437 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 754477002438 KMSKS motif; other site 754477002439 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 754477002440 tRNA binding surface [nucleotide binding]; other site 754477002441 anticodon binding site; other site 754477002442 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 754477002443 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 754477002444 active site 754477002445 HIGH motif; other site 754477002446 nucleotide binding site [chemical binding]; other site 754477002447 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 754477002448 KMSKS motif; other site 754477002449 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 754477002450 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 754477002451 substrate binding site [chemical binding]; other site 754477002452 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 754477002453 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 754477002454 putative active site [active] 754477002455 putative metal binding site [ion binding]; other site 754477002456 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 754477002457 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 754477002458 dimerization domain [polypeptide binding]; other site 754477002459 dimer interface [polypeptide binding]; other site 754477002460 catalytic residues [active] 754477002461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 754477002462 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 754477002463 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 754477002464 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 754477002465 active site 754477002466 Int/Topo IB signature motif; other site 754477002467 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 754477002468 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 754477002469 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 754477002470 RimM N-terminal domain; Region: RimM; pfam01782 754477002471 PRC-barrel domain; Region: PRC; pfam05239 754477002472 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 754477002473 signal recognition particle protein; Provisional; Region: PRK10867 754477002474 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 754477002475 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 754477002476 P loop; other site 754477002477 GTP binding site [chemical binding]; other site 754477002478 Signal peptide binding domain; Region: SRP_SPB; pfam02978 754477002479 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 754477002480 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 754477002481 Domain of unknown function DUF21; Region: DUF21; pfam01595 754477002482 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 754477002483 Transporter associated domain; Region: CorC_HlyC; smart01091 754477002484 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 754477002485 adenine DNA glycosylase; Provisional; Region: PRK10880 754477002486 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 754477002487 minor groove reading motif; other site 754477002488 helix-hairpin-helix signature motif; other site 754477002489 substrate binding pocket [chemical binding]; other site 754477002490 active site 754477002491 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 754477002492 DNA binding and oxoG recognition site [nucleotide binding] 754477002493 oxidative damage protection protein; Provisional; Region: PRK05408 754477002494 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 754477002495 DNA-binding site [nucleotide binding]; DNA binding site 754477002496 RNA-binding motif; other site 754477002497 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 754477002498 ABC transporter ATPase component; Reviewed; Region: PRK11147 754477002499 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477002500 Walker A/P-loop; other site 754477002501 ATP binding site [chemical binding]; other site 754477002502 Q-loop/lid; other site 754477002503 ABC transporter signature motif; other site 754477002504 Walker B; other site 754477002505 D-loop; other site 754477002506 H-loop/switch region; other site 754477002507 ABC transporter; Region: ABC_tran_2; pfam12848 754477002508 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 754477002509 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 754477002510 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 754477002511 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 754477002512 ABC transporter; Region: ABC_tran_2; pfam12848 754477002513 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 754477002514 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 754477002515 ligand binding site [chemical binding]; other site 754477002516 active site 754477002517 UGI interface [polypeptide binding]; other site 754477002518 catalytic site [active] 754477002519 methionine sulfoxide reductase B; Provisional; Region: PRK00222 754477002520 SelR domain; Region: SelR; pfam01641 754477002521 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 754477002522 GIY-YIG motif/motif A; other site 754477002523 putative active site [active] 754477002524 putative metal binding site [ion binding]; other site 754477002525 Mor transcription activator family; Region: Mor; pfam08765 754477002526 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 754477002527 HD domain; Region: HD_3; cl17350 754477002528 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 754477002529 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 754477002530 carbon storage regulator; Provisional; Region: PRK01712 754477002531 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 754477002532 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477002533 Walker A/P-loop; other site 754477002534 ATP binding site [chemical binding]; other site 754477002535 Integrase core domain; Region: rve; pfam00665 754477002536 Integrase core domain; Region: rve_3; cl15866 754477002537 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 754477002538 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 754477002539 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 754477002540 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 754477002541 non-specific DNA binding site [nucleotide binding]; other site 754477002542 salt bridge; other site 754477002543 sequence-specific DNA binding site [nucleotide binding]; other site 754477002544 Staphylococcal nuclease homologues; Region: SNc; smart00318 754477002545 Catalytic site; other site 754477002546 Staphylococcal nuclease homologue; Region: SNase; pfam00565 754477002547 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 754477002548 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 754477002549 N-acetyl-D-glucosamine binding site [chemical binding]; other site 754477002550 catalytic residue [active] 754477002551 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 754477002552 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 754477002553 Protein of unknown function (DUF935); Region: DUF935; pfam06074 754477002554 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 754477002555 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 754477002556 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 754477002557 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 754477002558 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 754477002559 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 754477002560 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 754477002561 Phage-related minor tail protein [Function unknown]; Region: COG5281 754477002562 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 754477002563 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 754477002564 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 754477002565 metal ion-dependent adhesion site (MIDAS); other site 754477002566 Putative phage tail protein; Region: Phage-tail_3; pfam13550 754477002567 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 754477002568 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 754477002569 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477002570 Walker A/P-loop; other site 754477002571 ATP binding site [chemical binding]; other site 754477002572 Q-loop/lid; other site 754477002573 ABC transporter signature motif; other site 754477002574 Walker B; other site 754477002575 D-loop; other site 754477002576 H-loop/switch region; other site 754477002577 ABC transporter; Region: ABC_tran_2; pfam12848 754477002578 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 754477002579 Dodecin; Region: Dodecin; pfam07311 754477002580 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 754477002581 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 754477002582 ATP binding site [chemical binding]; other site 754477002583 Mg++ binding site [ion binding]; other site 754477002584 motif III; other site 754477002585 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 754477002586 nucleotide binding region [chemical binding]; other site 754477002587 ATP-binding site [chemical binding]; other site 754477002588 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 754477002589 putative RNA binding site [nucleotide binding]; other site 754477002590 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 754477002591 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 754477002592 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 754477002593 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 754477002594 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 754477002595 active site 754477002596 catalytic residues [active] 754477002597 metal binding site [ion binding]; metal-binding site 754477002598 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 754477002599 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 754477002600 heterotetramer interface [polypeptide binding]; other site 754477002601 active site pocket [active] 754477002602 cleavage site 754477002603 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 754477002604 DEAD/DEAH box helicase; Region: DEAD; pfam00270 754477002605 ATP binding site [chemical binding]; other site 754477002606 putative Mg++ binding site [ion binding]; other site 754477002607 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 754477002608 SEC-C motif; Region: SEC-C; pfam02810 754477002609 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 754477002610 Peptidase family M23; Region: Peptidase_M23; pfam01551 754477002611 Protein of unknown function (DUF721); Region: DUF721; pfam05258 754477002612 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 754477002613 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 754477002614 cell division protein FtsZ; Validated; Region: PRK09330 754477002615 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 754477002616 nucleotide binding site [chemical binding]; other site 754477002617 SulA interaction site; other site 754477002618 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 754477002619 cell division protein FtsA; Region: ftsA; TIGR01174 754477002620 Cell division protein FtsA; Region: FtsA; smart00842 754477002621 Cell division protein FtsA; Region: FtsA; pfam14450 754477002622 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 754477002623 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 754477002624 Cell division protein FtsQ; Region: FtsQ; pfam03799 754477002625 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 754477002626 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 754477002627 ATP-grasp domain; Region: ATP-grasp_4; cl17255 754477002628 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 754477002629 FAD binding domain; Region: FAD_binding_4; pfam01565 754477002630 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 754477002631 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 754477002632 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 754477002633 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 754477002634 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 754477002635 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 754477002636 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 754477002637 active site 754477002638 homodimer interface [polypeptide binding]; other site 754477002639 cell division protein FtsW; Region: ftsW; TIGR02614 754477002640 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 754477002641 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 754477002642 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 754477002643 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 754477002644 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 754477002645 Mg++ binding site [ion binding]; other site 754477002646 putative catalytic motif [active] 754477002647 putative substrate binding site [chemical binding]; other site 754477002648 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 754477002649 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 754477002650 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 754477002651 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 754477002652 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 754477002653 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 754477002654 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 754477002655 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 754477002656 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 754477002657 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 754477002658 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 754477002659 Cell division protein FtsL; Region: FtsL; pfam04999 754477002660 MraW methylase family; Region: Methyltransf_5; pfam01795 754477002661 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 754477002662 cell division protein MraZ; Reviewed; Region: PRK00326 754477002663 MraZ protein; Region: MraZ; pfam02381 754477002664 MraZ protein; Region: MraZ; pfam02381 754477002665 Predicted methyltransferases [General function prediction only]; Region: COG0313 754477002666 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 754477002667 putative SAM binding site [chemical binding]; other site 754477002668 putative homodimer interface [polypeptide binding]; other site 754477002669 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 754477002670 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 754477002671 putative ligand binding site [chemical binding]; other site 754477002672 hypothetical protein; Reviewed; Region: PRK12497 754477002673 BON domain; Region: BON; pfam04972 754477002674 BON domain; Region: BON; cl02771 754477002675 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 754477002676 PilZ domain; Region: PilZ; pfam07238 754477002677 DNA repair protein RadA; Provisional; Region: PRK11823 754477002678 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 754477002679 Walker A motif/ATP binding site; other site 754477002680 ATP binding site [chemical binding]; other site 754477002681 Walker B motif; other site 754477002682 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 754477002683 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 754477002684 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 754477002685 active site 754477002686 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 754477002687 substrate binding site [chemical binding]; other site 754477002688 catalytic residues [active] 754477002689 dimer interface [polypeptide binding]; other site 754477002690 replicative DNA helicase; Region: DnaB; TIGR00665 754477002691 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 754477002692 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 754477002693 Walker A motif; other site 754477002694 ATP binding site [chemical binding]; other site 754477002695 Walker B motif; other site 754477002696 DNA binding loops [nucleotide binding] 754477002697 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 754477002698 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 754477002699 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 754477002700 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 754477002701 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 754477002702 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 754477002703 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 754477002704 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 754477002705 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 754477002706 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 754477002707 ligand binding site [chemical binding]; other site 754477002708 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 754477002709 MPT binding site; other site 754477002710 trimer interface [polypeptide binding]; other site 754477002711 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 754477002712 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 754477002713 ribonuclease D; Region: rnd; TIGR01388 754477002714 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 754477002715 catalytic site [active] 754477002716 putative active site [active] 754477002717 putative substrate binding site [chemical binding]; other site 754477002718 HRDC domain; Region: HRDC; pfam00570 754477002719 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 754477002720 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 754477002721 substrate binding site [chemical binding]; other site 754477002722 ATP binding site [chemical binding]; other site 754477002723 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 754477002724 tetramer interfaces [polypeptide binding]; other site 754477002725 binuclear metal-binding site [ion binding]; other site 754477002726 thiamine monophosphate kinase; Provisional; Region: PRK05731 754477002727 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 754477002728 ATP binding site [chemical binding]; other site 754477002729 dimerization interface [polypeptide binding]; other site 754477002730 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 754477002731 putative RNA binding site [nucleotide binding]; other site 754477002732 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 754477002733 homopentamer interface [polypeptide binding]; other site 754477002734 active site 754477002735 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 754477002736 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 754477002737 active site 754477002738 metal binding site [ion binding]; metal-binding site 754477002739 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 754477002740 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 754477002741 putative active site [active] 754477002742 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 754477002743 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 754477002744 dimer interface [polypeptide binding]; other site 754477002745 active site 754477002746 heme binding site [chemical binding]; other site 754477002747 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 754477002748 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 754477002749 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 754477002750 CysD dimerization site [polypeptide binding]; other site 754477002751 G1 box; other site 754477002752 putative GEF interaction site [polypeptide binding]; other site 754477002753 GTP/Mg2+ binding site [chemical binding]; other site 754477002754 Switch I region; other site 754477002755 G2 box; other site 754477002756 G3 box; other site 754477002757 Switch II region; other site 754477002758 G4 box; other site 754477002759 G5 box; other site 754477002760 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 754477002761 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 754477002762 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 754477002763 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 754477002764 Active Sites [active] 754477002765 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 754477002766 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 754477002767 Active Sites [active] 754477002768 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 754477002769 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 754477002770 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 754477002771 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 754477002772 substrate binding site [chemical binding]; other site 754477002773 dimerization interface [polypeptide binding]; other site 754477002774 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 754477002775 putative hydrophobic ligand binding site [chemical binding]; other site 754477002776 protein interface [polypeptide binding]; other site 754477002777 gate; other site 754477002778 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 754477002779 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 754477002780 active site 754477002781 catalytic residues [active] 754477002782 DNA binding site [nucleotide binding] 754477002783 Int/Topo IB signature motif; other site 754477002784 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 754477002785 Predicted transcriptional regulator [Transcription]; Region: COG2944 754477002786 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 754477002787 non-specific DNA binding site [nucleotide binding]; other site 754477002788 salt bridge; other site 754477002789 sequence-specific DNA binding site [nucleotide binding]; other site 754477002790 Protein of unknown function (Hypoth_ymh); Region: Hypoth_Ymh; pfam09509 754477002791 WYL domain; Region: WYL; pfam13280 754477002792 Prokaryotic E2 family A; Region: Prok-E2_A; pfam14457 754477002793 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 754477002794 ATP binding site [chemical binding]; other site 754477002795 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 754477002796 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 754477002797 hypothetical protein; Reviewed; Region: PRK00024 754477002798 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 754477002799 MPN+ (JAMM) motif; other site 754477002800 Zinc-binding site [ion binding]; other site 754477002801 Domain of unknown function (DUF932); Region: DUF932; cl12129 754477002802 ParB-like nuclease domain; Region: ParBc; pfam02195 754477002803 Uncharacterized conserved protein [Function unknown]; Region: COG5489 754477002804 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 754477002805 sequence-specific DNA binding site [nucleotide binding]; other site 754477002806 salt bridge; other site 754477002807 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 754477002808 Uncharacterized conserved protein [Function unknown]; Region: COG5419 754477002809 Helix-turn-helix domain; Region: HTH_17; cl17695 754477002810 Replication initiator protein A; Region: RPA; cl17860 754477002811 ParA-like protein; Provisional; Region: PHA02518 754477002812 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 754477002813 P-loop; other site 754477002814 Magnesium ion binding site [ion binding]; other site 754477002815 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 754477002816 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 754477002817 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 754477002818 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 754477002819 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 754477002820 Transposase; Region: DDE_Tnp_ISL3; pfam01610 754477002821 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 754477002822 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 754477002823 Phosphotransferase enzyme family; Region: APH; pfam01636 754477002824 active site 754477002825 substrate binding site [chemical binding]; other site 754477002826 ATP binding site [chemical binding]; other site 754477002827 Major Facilitator Superfamily; Region: MFS_1; pfam07690 754477002828 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 754477002829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 754477002830 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 754477002831 dimerization interface [polypeptide binding]; other site 754477002832 substrate binding pocket [chemical binding]; other site 754477002833 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 754477002834 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 754477002835 Walker A motif; other site 754477002836 ATP binding site [chemical binding]; other site 754477002837 Walker B motif; other site 754477002838 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 754477002839 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 754477002840 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 754477002841 ATP binding site [chemical binding]; other site 754477002842 Walker A motif; other site 754477002843 hexamer interface [polypeptide binding]; other site 754477002844 Walker B motif; other site 754477002845 Type IV secretory pathway, TrbD component [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TrbD; COG5268 754477002846 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 754477002847 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 754477002848 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 754477002849 Walker A motif; other site 754477002850 ATP binding site [chemical binding]; other site 754477002851 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 754477002852 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 754477002853 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 754477002854 conjugal transfer protein TrbL; Provisional; Region: PRK13875 754477002855 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 754477002856 conjugal transfer protein TrbF; Provisional; Region: PRK13872 754477002857 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 754477002858 VirB7 interaction site; other site 754477002859 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 754477002860 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 754477002861 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 754477002862 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 754477002863 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477002864 N-terminal plug; other site 754477002865 ligand-binding site [chemical binding]; other site 754477002866 YKOF-related Family; Region: Ykof; pfam07615 754477002867 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 754477002868 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 754477002869 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 754477002870 motif II; other site 754477002871 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 754477002872 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477002873 N-terminal plug; other site 754477002874 ligand-binding site [chemical binding]; other site 754477002875 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 754477002876 active site 754477002877 metal binding site [ion binding]; metal-binding site 754477002878 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 754477002879 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 754477002880 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 754477002881 C factor cell-cell signaling protein; Provisional; Region: PRK09009 754477002882 NADP binding site [chemical binding]; other site 754477002883 homodimer interface [polypeptide binding]; other site 754477002884 active site 754477002885 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 754477002886 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 754477002887 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 754477002888 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 754477002889 active site 754477002890 putative substrate binding pocket [chemical binding]; other site 754477002891 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 754477002892 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 754477002893 S-adenosylmethionine binding site [chemical binding]; other site 754477002894 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 754477002895 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 754477002896 motif II; other site 754477002897 RmuC family; Region: RmuC; pfam02646 754477002898 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 754477002899 active site lid residues [active] 754477002900 substrate binding pocket [chemical binding]; other site 754477002901 catalytic residues [active] 754477002902 substrate-Mg2+ binding site; other site 754477002903 aspartate-rich region 1; other site 754477002904 aspartate-rich region 2; other site 754477002905 Cupin domain; Region: Cupin_2; cl17218 754477002906 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 754477002907 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 754477002908 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 754477002909 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 754477002910 active site 754477002911 HIGH motif; other site 754477002912 dimer interface [polypeptide binding]; other site 754477002913 KMSKS motif; other site 754477002914 putative peptidase; Provisional; Region: PRK11649 754477002915 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 754477002916 Peptidase family M23; Region: Peptidase_M23; pfam01551 754477002917 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 754477002918 4-alpha-glucanotransferase; Provisional; Region: PRK14508 754477002919 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 754477002920 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 754477002921 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 754477002922 putative active site [active] 754477002923 catalytic site [active] 754477002924 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 754477002925 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 754477002926 ligand binding site; other site 754477002927 oligomer interface; other site 754477002928 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 754477002929 dimer interface [polypeptide binding]; other site 754477002930 N-terminal domain interface [polypeptide binding]; other site 754477002931 sulfate 1 binding site; other site 754477002932 glycogen branching enzyme; Provisional; Region: PRK05402 754477002933 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 754477002934 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 754477002935 active site 754477002936 catalytic site [active] 754477002937 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 754477002938 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 754477002939 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 754477002940 active site 754477002941 dimer interface [polypeptide binding]; other site 754477002942 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 754477002943 dimer interface [polypeptide binding]; other site 754477002944 active site 754477002945 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 754477002946 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 754477002947 dimer interface [polypeptide binding]; other site 754477002948 motif 1; other site 754477002949 active site 754477002950 motif 2; other site 754477002951 motif 3; other site 754477002952 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 754477002953 anticodon binding site; other site 754477002954 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 754477002955 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 754477002956 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 754477002957 Helix-turn-helix domain; Region: HTH_25; pfam13413 754477002958 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 754477002959 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 754477002960 TPR motif; other site 754477002961 binding surface 754477002962 Tetratricopeptide repeat; Region: TPR_12; pfam13424 754477002963 Tetratricopeptide repeat; Region: TPR_12; pfam13424 754477002964 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 754477002965 binding surface 754477002966 TPR motif; other site 754477002967 Radical SAM superfamily; Region: Radical_SAM; pfam04055 754477002968 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 754477002969 FeS/SAM binding site; other site 754477002970 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 754477002971 active site 754477002972 multimer interface [polypeptide binding]; other site 754477002973 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 754477002974 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 754477002975 recombination and repair protein; Provisional; Region: PRK10869 754477002976 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 754477002977 Walker A/P-loop; other site 754477002978 ATP binding site [chemical binding]; other site 754477002979 Q-loop/lid; other site 754477002980 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477002981 ABC transporter signature motif; other site 754477002982 Walker B; other site 754477002983 D-loop; other site 754477002984 H-loop/switch region; other site 754477002985 ferric uptake regulator; Provisional; Region: fur; PRK09462 754477002986 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 754477002987 metal binding site 2 [ion binding]; metal-binding site 754477002988 putative DNA binding helix; other site 754477002989 metal binding site 1 [ion binding]; metal-binding site 754477002990 dimer interface [polypeptide binding]; other site 754477002991 structural Zn2+ binding site [ion binding]; other site 754477002992 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 754477002993 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 754477002994 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 754477002995 active site clefts [active] 754477002996 zinc binding site [ion binding]; other site 754477002997 dimer interface [polypeptide binding]; other site 754477002998 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 754477002999 PilZ domain; Region: PilZ; pfam07238 754477003000 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 754477003001 diiron binding motif [ion binding]; other site 754477003002 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477003003 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477003004 metal binding site [ion binding]; metal-binding site 754477003005 active site 754477003006 I-site; other site 754477003007 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 754477003008 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 754477003009 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 754477003010 active site 754477003011 phosphorylation site [posttranslational modification] 754477003012 intermolecular recognition site; other site 754477003013 dimerization interface [polypeptide binding]; other site 754477003014 ribonuclease R; Region: RNase_R; TIGR02063 754477003015 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 754477003016 RNB domain; Region: RNB; pfam00773 754477003017 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 754477003018 RNA binding site [nucleotide binding]; other site 754477003019 HDOD domain; Region: HDOD; pfam08668 754477003020 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 754477003021 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 754477003022 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 754477003023 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 754477003024 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 754477003025 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 754477003026 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 754477003027 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 754477003028 Predicted transcriptional regulator [Transcription]; Region: COG2378 754477003029 WYL domain; Region: WYL; pfam13280 754477003030 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477003031 metal binding site [ion binding]; metal-binding site 754477003032 active site 754477003033 I-site; other site 754477003034 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 754477003035 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 754477003036 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 754477003037 apolar tunnel; other site 754477003038 heme binding site [chemical binding]; other site 754477003039 dimerization interface [polypeptide binding]; other site 754477003040 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 754477003041 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 754477003042 Trp docking motif [polypeptide binding]; other site 754477003043 active site 754477003044 Isochorismatase family; Region: Isochorismatase; pfam00857 754477003045 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 754477003046 catalytic triad [active] 754477003047 conserved cis-peptide bond; other site 754477003048 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 754477003049 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 754477003050 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 754477003051 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 754477003052 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 754477003053 PAS domain; Region: PAS_9; pfam13426 754477003054 putative active site [active] 754477003055 heme pocket [chemical binding]; other site 754477003056 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477003057 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477003058 metal binding site [ion binding]; metal-binding site 754477003059 active site 754477003060 I-site; other site 754477003061 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 754477003062 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 754477003063 active site 754477003064 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 754477003065 Catalytic domain of Protein Kinases; Region: PKc; cd00180 754477003066 active site 754477003067 substrate binding site [chemical binding]; other site 754477003068 ATP binding site [chemical binding]; other site 754477003069 activation loop (A-loop); other site 754477003070 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 754477003071 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 754477003072 putative substrate translocation pore; other site 754477003073 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 754477003074 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 754477003075 ANTAR domain; Region: ANTAR; pfam03861 754477003076 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 754477003077 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 754477003078 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 754477003079 [4Fe-4S] binding site [ion binding]; other site 754477003080 molybdopterin cofactor binding site; other site 754477003081 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_CT_Nitrate-R-NapA-like; cd02791 754477003082 molybdopterin cofactor binding site; other site 754477003083 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 754477003084 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 754477003085 [2Fe-2S] cluster binding site [ion binding]; other site 754477003086 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 754477003087 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 754477003088 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 754477003089 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 754477003090 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 754477003091 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 754477003092 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 754477003093 MarR family; Region: MarR_2; cl17246 754477003094 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 754477003095 YcjX-like family, DUF463; Region: DUF463; cl01193 754477003096 hypothetical protein; Provisional; Region: PRK05415 754477003097 Domain of unknown function (DUF697); Region: DUF697; cl12064 754477003098 CHASE domain; Region: CHASE; pfam03924 754477003099 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 754477003100 PAS fold; Region: PAS_3; pfam08447 754477003101 putative active site [active] 754477003102 heme pocket [chemical binding]; other site 754477003103 PAS domain S-box; Region: sensory_box; TIGR00229 754477003104 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 754477003105 putative active site [active] 754477003106 heme pocket [chemical binding]; other site 754477003107 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477003108 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477003109 metal binding site [ion binding]; metal-binding site 754477003110 active site 754477003111 I-site; other site 754477003112 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 754477003113 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 754477003114 FMN binding site [chemical binding]; other site 754477003115 dimer interface [polypeptide binding]; other site 754477003116 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 754477003117 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 754477003118 Active Sites [active] 754477003119 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 754477003120 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 754477003121 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 754477003122 GIY-YIG motif/motif A; other site 754477003123 active site 754477003124 catalytic site [active] 754477003125 putative DNA binding site [nucleotide binding]; other site 754477003126 metal binding site [ion binding]; metal-binding site 754477003127 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 754477003128 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 754477003129 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 754477003130 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 754477003131 ATP binding site [chemical binding]; other site 754477003132 putative Mg++ binding site [ion binding]; other site 754477003133 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 754477003134 nucleotide binding region [chemical binding]; other site 754477003135 ATP-binding site [chemical binding]; other site 754477003136 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 754477003137 Methyltransferase domain; Region: Methyltransf_23; pfam13489 754477003138 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 754477003139 S-adenosylmethionine binding site [chemical binding]; other site 754477003140 Retropepsins; pepsin-like aspartate proteases; Region: retropepsin_like; cd00303 754477003141 inhibitor binding site; inhibition site 754477003142 catalytic motif [active] 754477003143 Catalytic residue [active] 754477003144 Active site flap [active] 754477003145 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 754477003146 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 754477003147 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 754477003148 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 754477003149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 754477003150 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 754477003151 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 754477003152 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 754477003153 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 754477003154 catalytic triad [active] 754477003155 dimer interface [polypeptide binding]; other site 754477003156 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 754477003157 tetramer (dimer of dimers) interface [polypeptide binding]; other site 754477003158 active site 754477003159 dimer interface [polypeptide binding]; other site 754477003160 Phosphotransferase enzyme family; Region: APH; pfam01636 754477003161 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 754477003162 active site 754477003163 ATP binding site [chemical binding]; other site 754477003164 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 754477003165 Low molecular weight phosphatase family; Region: LMWPc; cd00115 754477003166 active site 754477003167 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 754477003168 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 754477003169 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 754477003170 putative active site [active] 754477003171 putative catalytic site [active] 754477003172 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 754477003173 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 754477003174 electron transport complex protein RsxA; Provisional; Region: PRK05151 754477003175 ferredoxin; Provisional; Region: PRK08764 754477003176 Putative Fe-S cluster; Region: FeS; pfam04060 754477003177 4Fe-4S binding domain; Region: Fer4; pfam00037 754477003178 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 754477003179 SLBB domain; Region: SLBB; pfam10531 754477003180 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 754477003181 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 754477003182 FMN-binding domain; Region: FMN_bind; cl01081 754477003183 electron transport complex RsxE subunit; Provisional; Region: PRK12405 754477003184 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 754477003185 endonuclease III; Region: ENDO3c; smart00478 754477003186 minor groove reading motif; other site 754477003187 helix-hairpin-helix signature motif; other site 754477003188 substrate binding pocket [chemical binding]; other site 754477003189 active site 754477003190 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 754477003191 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 754477003192 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 754477003193 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 754477003194 putative NAD(P) binding site [chemical binding]; other site 754477003195 dimer interface [polypeptide binding]; other site 754477003196 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 754477003197 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 754477003198 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 754477003199 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 754477003200 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 754477003201 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 754477003202 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 754477003203 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 754477003204 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 754477003205 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 754477003206 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 754477003207 hypothetical protein; Validated; Region: PRK00124 754477003208 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 754477003209 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 754477003210 Part of AAA domain; Region: AAA_19; pfam13245 754477003211 Family description; Region: UvrD_C_2; pfam13538 754477003212 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 754477003213 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 754477003214 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 754477003215 Walker A motif; other site 754477003216 ATP binding site [chemical binding]; other site 754477003217 Walker B motif; other site 754477003218 arginine finger; other site 754477003219 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 754477003220 Protein of unknown function, DUF481; Region: DUF481; pfam04338 754477003221 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 754477003222 Membrane fusogenic activity; Region: BMFP; pfam04380 754477003223 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 754477003224 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 754477003225 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 754477003226 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 754477003227 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 754477003228 AAA domain; Region: AAA_30; pfam13604 754477003229 Family description; Region: UvrD_C_2; pfam13538 754477003230 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 754477003231 Family description; Region: UvrD_C_2; pfam13538 754477003232 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 754477003233 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 754477003234 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 754477003235 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 754477003236 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 754477003237 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 754477003238 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 754477003239 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 754477003240 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 754477003241 dimerization interface [polypeptide binding]; other site 754477003242 domain crossover interface; other site 754477003243 redox-dependent activation switch; other site 754477003244 heat shock protein 90; Provisional; Region: PRK05218 754477003245 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 754477003246 ATP binding site [chemical binding]; other site 754477003247 Mg2+ binding site [ion binding]; other site 754477003248 G-X-G motif; other site 754477003249 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 754477003250 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 754477003251 putative catalytic site [active] 754477003252 putative metal binding site [ion binding]; other site 754477003253 putative phosphate binding site [ion binding]; other site 754477003254 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 754477003255 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 754477003256 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 754477003257 catalytic triad [active] 754477003258 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 754477003259 putative active site pocket [active] 754477003260 dimerization interface [polypeptide binding]; other site 754477003261 putative catalytic residue [active] 754477003262 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 754477003263 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 754477003264 active site 754477003265 nucleotide binding site [chemical binding]; other site 754477003266 HIGH motif; other site 754477003267 KMSKS motif; other site 754477003268 Predicted amidohydrolase [General function prediction only]; Region: COG0388 754477003269 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 754477003270 putative active site [active] 754477003271 catalytic triad [active] 754477003272 putative dimer interface [polypeptide binding]; other site 754477003273 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 754477003274 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 754477003275 substrate binding pocket [chemical binding]; other site 754477003276 membrane-bound complex binding site; other site 754477003277 hinge residues; other site 754477003278 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477003279 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477003280 metal binding site [ion binding]; metal-binding site 754477003281 active site 754477003282 I-site; other site 754477003283 hypothetical protein; Validated; Region: PRK02101 754477003284 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 754477003285 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 754477003286 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 754477003287 DctM-like transporters; Region: DctM; pfam06808 754477003288 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 754477003289 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 754477003290 motif 1; other site 754477003291 dimer interface [polypeptide binding]; other site 754477003292 active site 754477003293 motif 2; other site 754477003294 elongation factor P; Validated; Region: PRK00529 754477003295 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 754477003296 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 754477003297 RNA binding site [nucleotide binding]; other site 754477003298 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 754477003299 RNA binding site [nucleotide binding]; other site 754477003300 Radical SAM superfamily; Region: Radical_SAM; pfam04055 754477003301 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 754477003302 FeS/SAM binding site; other site 754477003303 citrate synthase; Provisional; Region: PRK14036 754477003304 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 754477003305 oxalacetate binding site [chemical binding]; other site 754477003306 citrylCoA binding site [chemical binding]; other site 754477003307 coenzyme A binding site [chemical binding]; other site 754477003308 catalytic triad [active] 754477003309 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 754477003310 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 754477003311 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 754477003312 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 754477003313 active site 754477003314 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 754477003315 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477003316 N-terminal plug; other site 754477003317 ligand-binding site [chemical binding]; other site 754477003318 outer membrane receptor FepA; Provisional; Region: PRK13524 754477003319 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477003320 N-terminal plug; other site 754477003321 ligand-binding site [chemical binding]; other site 754477003322 lipoyl synthase; Provisional; Region: PRK05481 754477003323 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 754477003324 FeS/SAM binding site; other site 754477003325 lipoate-protein ligase B; Provisional; Region: PRK14342 754477003326 Protein of unknown function (DUF493); Region: DUF493; pfam04359 754477003327 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 754477003328 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 754477003329 homodimer interface [polypeptide binding]; other site 754477003330 substrate-cofactor binding pocket; other site 754477003331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477003332 catalytic residue [active] 754477003333 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 754477003334 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 754477003335 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 754477003336 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 754477003337 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 754477003338 Sporulation related domain; Region: SPOR; pfam05036 754477003339 Transglycosylase SLT domain; Region: SLT_2; pfam13406 754477003340 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 754477003341 N-acetyl-D-glucosamine binding site [chemical binding]; other site 754477003342 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 754477003343 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 754477003344 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 754477003345 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 754477003346 rod shape-determining protein MreD; Region: MreD; cl01087 754477003347 rod shape-determining protein MreC; Provisional; Region: PRK13922 754477003348 rod shape-determining protein MreC; Region: MreC; pfam04085 754477003349 rod shape-determining protein MreB; Provisional; Region: PRK13927 754477003350 MreB and similar proteins; Region: MreB_like; cd10225 754477003351 nucleotide binding site [chemical binding]; other site 754477003352 Mg binding site [ion binding]; other site 754477003353 putative protofilament interaction site [polypeptide binding]; other site 754477003354 RodZ interaction site [polypeptide binding]; other site 754477003355 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 754477003356 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 754477003357 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 754477003358 acetolactate synthase; Reviewed; Region: PRK08322 754477003359 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 754477003360 PYR/PP interface [polypeptide binding]; other site 754477003361 dimer interface [polypeptide binding]; other site 754477003362 TPP binding site [chemical binding]; other site 754477003363 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 754477003364 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 754477003365 TPP-binding site [chemical binding]; other site 754477003366 dimer interface [polypeptide binding]; other site 754477003367 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 754477003368 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 754477003369 catalytic residues [active] 754477003370 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 754477003371 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 754477003372 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 754477003373 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 754477003374 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 754477003375 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 754477003376 Walker A/P-loop; other site 754477003377 ATP binding site [chemical binding]; other site 754477003378 Q-loop/lid; other site 754477003379 ABC transporter signature motif; other site 754477003380 Walker B; other site 754477003381 D-loop; other site 754477003382 H-loop/switch region; other site 754477003383 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 754477003384 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 754477003385 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 754477003386 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 754477003387 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 754477003388 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 754477003389 DNA binding site [nucleotide binding] 754477003390 catalytic residue [active] 754477003391 H2TH interface [polypeptide binding]; other site 754477003392 putative catalytic residues [active] 754477003393 turnover-facilitating residue; other site 754477003394 intercalation triad [nucleotide binding]; other site 754477003395 8OG recognition residue [nucleotide binding]; other site 754477003396 putative reading head residues; other site 754477003397 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 754477003398 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 754477003399 Cytochrome c; Region: Cytochrom_C; cl11414 754477003400 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 754477003401 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 754477003402 RNA binding surface [nucleotide binding]; other site 754477003403 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 754477003404 active site 754477003405 elongation factor G; Reviewed; Region: PRK00007 754477003406 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 754477003407 G1 box; other site 754477003408 putative GEF interaction site [polypeptide binding]; other site 754477003409 GTP/Mg2+ binding site [chemical binding]; other site 754477003410 Switch I region; other site 754477003411 G2 box; other site 754477003412 G3 box; other site 754477003413 Switch II region; other site 754477003414 G4 box; other site 754477003415 G5 box; other site 754477003416 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 754477003417 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 754477003418 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 754477003419 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 754477003420 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 754477003421 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 754477003422 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 754477003423 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 754477003424 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 754477003425 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 754477003426 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 754477003427 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 754477003428 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 754477003429 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 754477003430 4Fe-4S binding domain; Region: Fer4; pfam00037 754477003431 4Fe-4S binding domain; Region: Fer4; pfam00037 754477003432 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 754477003433 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 754477003434 NADH dehydrogenase subunit G; Validated; Region: PRK09129 754477003435 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 754477003436 catalytic loop [active] 754477003437 iron binding site [ion binding]; other site 754477003438 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 754477003439 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 754477003440 molybdopterin cofactor binding site; other site 754477003441 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 754477003442 molybdopterin cofactor binding site; other site 754477003443 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 754477003444 SLBB domain; Region: SLBB; pfam10531 754477003445 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 754477003446 NADH dehydrogenase subunit E; Validated; Region: PRK07539 754477003447 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 754477003448 putative dimer interface [polypeptide binding]; other site 754477003449 [2Fe-2S] cluster binding site [ion binding]; other site 754477003450 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 754477003451 NADH dehydrogenase subunit D; Validated; Region: PRK06075 754477003452 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 754477003453 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 754477003454 NADH dehydrogenase subunit B; Validated; Region: PRK06411 754477003455 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 754477003456 Predicted permeases [General function prediction only]; Region: RarD; COG2962 754477003457 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 754477003458 triosephosphate isomerase; Provisional; Region: PRK14567 754477003459 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 754477003460 substrate binding site [chemical binding]; other site 754477003461 dimer interface [polypeptide binding]; other site 754477003462 catalytic triad [active] 754477003463 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 754477003464 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 754477003465 active site 754477003466 substrate binding site [chemical binding]; other site 754477003467 metal binding site [ion binding]; metal-binding site 754477003468 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 754477003469 dihydropteroate synthase; Region: DHPS; TIGR01496 754477003470 substrate binding pocket [chemical binding]; other site 754477003471 dimer interface [polypeptide binding]; other site 754477003472 inhibitor binding site; inhibition site 754477003473 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 754477003474 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 754477003475 Walker A motif; other site 754477003476 ATP binding site [chemical binding]; other site 754477003477 Walker B motif; other site 754477003478 arginine finger; other site 754477003479 Peptidase family M41; Region: Peptidase_M41; pfam01434 754477003480 FtsJ-like methyltransferase; Region: FtsJ; cl17430 754477003481 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 754477003482 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 754477003483 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 754477003484 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 754477003485 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 754477003486 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 754477003487 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 754477003488 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 754477003489 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 754477003490 ATP-grasp domain; Region: ATP-grasp_4; cl17255 754477003491 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 754477003492 IMP binding site; other site 754477003493 dimer interface [polypeptide binding]; other site 754477003494 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 754477003495 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 754477003496 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 754477003497 catalytic site [active] 754477003498 subunit interface [polypeptide binding]; other site 754477003499 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_aspartate_rich; cd04823 754477003500 dimer interface [polypeptide binding]; other site 754477003501 allosteric magnesium binding site [ion binding]; other site 754477003502 active site 754477003503 aspartate-rich active site metal binding site; other site 754477003504 Schiff base residues; other site 754477003505 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 754477003506 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 754477003507 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 754477003508 shikimate binding site; other site 754477003509 NAD(P) binding site [chemical binding]; other site 754477003510 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 754477003511 dimer interface [polypeptide binding]; other site 754477003512 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 754477003513 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 754477003514 active site 754477003515 phosphorylation site [posttranslational modification] 754477003516 intermolecular recognition site; other site 754477003517 dimerization interface [polypeptide binding]; other site 754477003518 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 754477003519 DNA binding site [nucleotide binding] 754477003520 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 754477003521 dimerization interface [polypeptide binding]; other site 754477003522 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 754477003523 dimer interface [polypeptide binding]; other site 754477003524 phosphorylation site [posttranslational modification] 754477003525 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 754477003526 ATP binding site [chemical binding]; other site 754477003527 Mg2+ binding site [ion binding]; other site 754477003528 G-X-G motif; other site 754477003529 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 754477003530 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 754477003531 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 754477003532 HlyD family secretion protein; Region: HlyD_3; pfam13437 754477003533 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 754477003534 MarR family; Region: MarR_2; pfam12802 754477003535 MarR family; Region: MarR_2; cl17246 754477003536 Cell division protein ZapA; Region: ZapA; pfam05164 754477003537 TIGR02449 family protein; Region: TIGR02449 754477003538 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 754477003539 proline aminopeptidase P II; Provisional; Region: PRK10879 754477003540 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 754477003541 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 754477003542 active site 754477003543 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 754477003544 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 754477003545 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 754477003546 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 754477003547 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 754477003548 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 754477003549 ATP binding site [chemical binding]; other site 754477003550 Mg++ binding site [ion binding]; other site 754477003551 motif III; other site 754477003552 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 754477003553 nucleotide binding region [chemical binding]; other site 754477003554 ATP-binding site [chemical binding]; other site 754477003555 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 754477003556 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 754477003557 catalytic residues [active] 754477003558 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 754477003559 Part of AAA domain; Region: AAA_19; pfam13245 754477003560 Family description; Region: UvrD_C_2; pfam13538 754477003561 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 754477003562 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 754477003563 Predicted metal-binding protein [General function prediction only]; Region: COG3019 754477003564 EamA-like transporter family; Region: EamA; cl17759 754477003565 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 754477003566 DEAD-like helicases superfamily; Region: DEXDc; smart00487 754477003567 ATP binding site [chemical binding]; other site 754477003568 putative Mg++ binding site [ion binding]; other site 754477003569 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 754477003570 nucleotide binding region [chemical binding]; other site 754477003571 ATP-binding site [chemical binding]; other site 754477003572 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 754477003573 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 754477003574 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 754477003575 glycogen synthase; Provisional; Region: glgA; PRK00654 754477003576 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 754477003577 ADP-binding pocket [chemical binding]; other site 754477003578 homodimer interface [polypeptide binding]; other site 754477003579 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 754477003580 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 754477003581 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 754477003582 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 754477003583 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 754477003584 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 754477003585 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 754477003586 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 754477003587 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 754477003588 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 754477003589 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 754477003590 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 754477003591 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 754477003592 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 754477003593 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 754477003594 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 754477003595 FHIPEP family; Region: FHIPEP; pfam00771 754477003596 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 754477003597 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477003598 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 754477003599 Walker A/P-loop; other site 754477003600 ATP binding site [chemical binding]; other site 754477003601 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 754477003602 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 754477003603 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 754477003604 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 754477003605 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 754477003606 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 754477003607 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 754477003608 DNA binding residues [nucleotide binding] 754477003609 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 754477003610 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 754477003611 active site 754477003612 phosphorylation site [posttranslational modification] 754477003613 intermolecular recognition site; other site 754477003614 dimerization interface [polypeptide binding]; other site 754477003615 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 754477003616 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 754477003617 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 754477003618 putative binding surface; other site 754477003619 active site 754477003620 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 754477003621 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 754477003622 ATP binding site [chemical binding]; other site 754477003623 Mg2+ binding site [ion binding]; other site 754477003624 G-X-G motif; other site 754477003625 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 754477003626 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 754477003627 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 754477003628 active site 754477003629 phosphorylation site [posttranslational modification] 754477003630 intermolecular recognition site; other site 754477003631 dimerization interface [polypeptide binding]; other site 754477003632 CheB methylesterase; Region: CheB_methylest; pfam01339 754477003633 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 754477003634 flagellar motor protein; Reviewed; Region: motC; PRK09109 754477003635 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 754477003636 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 754477003637 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 754477003638 ligand binding site [chemical binding]; other site 754477003639 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 754477003640 putative CheA interaction surface; other site 754477003641 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 754477003642 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 754477003643 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477003644 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477003645 metal binding site [ion binding]; metal-binding site 754477003646 active site 754477003647 I-site; other site 754477003648 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 754477003649 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 754477003650 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 754477003651 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 754477003652 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 754477003653 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 754477003654 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 754477003655 glucokinase, proteobacterial type; Region: glk; TIGR00749 754477003656 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 754477003657 nucleotide binding site [chemical binding]; other site 754477003658 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 754477003659 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 754477003660 putative active site [active] 754477003661 Protein of unknown function (DUF541); Region: SIMPL; cl01077 754477003662 Uncharacterized conserved protein [Function unknown]; Region: COG2968 754477003663 threonine dehydratase; Reviewed; Region: PRK09224 754477003664 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 754477003665 tetramer interface [polypeptide binding]; other site 754477003666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477003667 catalytic residue [active] 754477003668 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 754477003669 putative Ile/Val binding site [chemical binding]; other site 754477003670 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 754477003671 putative Ile/Val binding site [chemical binding]; other site 754477003672 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 754477003673 tetramer (dimer of dimers) interface [polypeptide binding]; other site 754477003674 active site 754477003675 dimer interface [polypeptide binding]; other site 754477003676 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 754477003677 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 754477003678 FtsX-like permease family; Region: FtsX; pfam02687 754477003679 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 754477003680 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 754477003681 Walker A/P-loop; other site 754477003682 ATP binding site [chemical binding]; other site 754477003683 Q-loop/lid; other site 754477003684 ABC transporter signature motif; other site 754477003685 Walker B; other site 754477003686 D-loop; other site 754477003687 H-loop/switch region; other site 754477003688 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 754477003689 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 754477003690 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 754477003691 Competence protein; Region: Competence; pfam03772 754477003692 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 754477003693 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 754477003694 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 754477003695 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 754477003696 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 754477003697 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 754477003698 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477003699 Walker A/P-loop; other site 754477003700 ATP binding site [chemical binding]; other site 754477003701 Q-loop/lid; other site 754477003702 ABC transporter signature motif; other site 754477003703 Walker B; other site 754477003704 D-loop; other site 754477003705 H-loop/switch region; other site 754477003706 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 754477003707 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 754477003708 Uncharacterized conserved protein [Function unknown]; Region: COG2835 754477003709 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 754477003710 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 754477003711 Ligand binding site; other site 754477003712 oligomer interface; other site 754477003713 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 754477003714 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 754477003715 homodimer interface [polypeptide binding]; other site 754477003716 oligonucleotide binding site [chemical binding]; other site 754477003717 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 754477003718 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 754477003719 RNA binding surface [nucleotide binding]; other site 754477003720 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 754477003721 active site 754477003722 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 754477003723 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 754477003724 motif II; other site 754477003725 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 754477003726 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 754477003727 tandem repeat interface [polypeptide binding]; other site 754477003728 oligomer interface [polypeptide binding]; other site 754477003729 active site residues [active] 754477003730 HDOD domain; Region: HDOD; pfam08668 754477003731 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 754477003732 Zn2+ binding site [ion binding]; other site 754477003733 Mg2+ binding site [ion binding]; other site 754477003734 adenylate kinase; Reviewed; Region: adk; PRK00279 754477003735 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 754477003736 AMP-binding site [chemical binding]; other site 754477003737 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 754477003738 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 754477003739 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 754477003740 substrate binding site [chemical binding]; other site 754477003741 ATP binding site [chemical binding]; other site 754477003742 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 754477003743 iron-sulfur cluster [ion binding]; other site 754477003744 [2Fe-2S] cluster binding site [ion binding]; other site 754477003745 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 754477003746 Helicase; Region: Helicase_RecD; pfam05127 754477003747 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 754477003748 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 754477003749 SlyX; Region: SlyX; pfam04102 754477003750 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 754477003751 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 754477003752 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 754477003753 substrate binding pocket [chemical binding]; other site 754477003754 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 754477003755 B12 binding site [chemical binding]; other site 754477003756 cobalt ligand [ion binding]; other site 754477003757 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 754477003758 potassium/proton antiporter; Reviewed; Region: PRK05326 754477003759 TrkA-C domain; Region: TrkA_C; pfam02080 754477003760 Transporter associated domain; Region: CorC_HlyC; smart01091 754477003761 2-isopropylmalate synthase; Validated; Region: PRK03739 754477003762 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 754477003763 active site 754477003764 catalytic residues [active] 754477003765 metal binding site [ion binding]; metal-binding site 754477003766 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 754477003767 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 754477003768 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 754477003769 putative DNA binding site [nucleotide binding]; other site 754477003770 putative Zn2+ binding site [ion binding]; other site 754477003771 AsnC family; Region: AsnC_trans_reg; pfam01037 754477003772 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 754477003773 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 754477003774 putative active site [active] 754477003775 PhoH-like protein; Region: PhoH; pfam02562 754477003776 PilZ domain; Region: PilZ; pfam07238 754477003777 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 754477003778 AAA domain; Region: AAA_26; pfam13500 754477003779 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 754477003780 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 754477003781 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 754477003782 S-adenosylmethionine binding site [chemical binding]; other site 754477003783 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 754477003784 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 754477003785 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 754477003786 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 754477003787 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 754477003788 catalytic residue [active] 754477003789 biotin synthase; Provisional; Region: PRK15108 754477003790 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 754477003791 FeS/SAM binding site; other site 754477003792 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 754477003793 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 754477003794 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 754477003795 active site 754477003796 Protein of unknown function, DUF484; Region: DUF484; cl17449 754477003797 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477003798 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477003799 metal binding site [ion binding]; metal-binding site 754477003800 active site 754477003801 I-site; other site 754477003802 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 754477003803 Staphylococcal nuclease homologues; Region: SNc; smart00318 754477003804 Catalytic site; other site 754477003805 Staphylococcal nuclease homologue; Region: SNase; pfam00565 754477003806 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 754477003807 UbiA prenyltransferase family; Region: UbiA; pfam01040 754477003808 Chorismate lyase; Region: Chor_lyase; cl01230 754477003809 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 754477003810 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 754477003811 ssDNA binding site; other site 754477003812 generic binding surface II; other site 754477003813 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 754477003814 ATP binding site [chemical binding]; other site 754477003815 putative Mg++ binding site [ion binding]; other site 754477003816 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 754477003817 nucleotide binding region [chemical binding]; other site 754477003818 ATP-binding site [chemical binding]; other site 754477003819 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 754477003820 homotrimer interaction site [polypeptide binding]; other site 754477003821 putative active site [active] 754477003822 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 754477003823 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 754477003824 Zn2+ binding site [ion binding]; other site 754477003825 Mg2+ binding site [ion binding]; other site 754477003826 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 754477003827 synthetase active site [active] 754477003828 NTP binding site [chemical binding]; other site 754477003829 metal binding site [ion binding]; metal-binding site 754477003830 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 754477003831 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 754477003832 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 754477003833 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 754477003834 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 754477003835 catalytic site [active] 754477003836 G-X2-G-X-G-K; other site 754477003837 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 754477003838 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 754477003839 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 754477003840 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 754477003841 dimer interface [polypeptide binding]; other site 754477003842 conserved gate region; other site 754477003843 putative PBP binding loops; other site 754477003844 ABC-ATPase subunit interface; other site 754477003845 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 754477003846 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 754477003847 Walker A/P-loop; other site 754477003848 ATP binding site [chemical binding]; other site 754477003849 Q-loop/lid; other site 754477003850 ABC transporter signature motif; other site 754477003851 Walker B; other site 754477003852 D-loop; other site 754477003853 H-loop/switch region; other site 754477003854 TOBE domain; Region: TOBE_2; pfam08402 754477003855 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 754477003856 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 754477003857 DNA binding residues [nucleotide binding] 754477003858 putative dimer interface [polypeptide binding]; other site 754477003859 putative metal binding residues [ion binding]; other site 754477003860 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 754477003861 S-adenosylmethionine binding site [chemical binding]; other site 754477003862 hypothetical protein; Provisional; Region: PRK11820 754477003863 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 754477003864 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 754477003865 ribonuclease PH; Reviewed; Region: rph; PRK00173 754477003866 Ribonuclease PH; Region: RNase_PH_bact; cd11362 754477003867 hexamer interface [polypeptide binding]; other site 754477003868 active site 754477003869 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 754477003870 dimerization interface [polypeptide binding]; other site 754477003871 active site 754477003872 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 754477003873 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 754477003874 FeS/SAM binding site; other site 754477003875 HemN C-terminal domain; Region: HemN_C; pfam06969 754477003876 threonine synthase; Reviewed; Region: PRK06721 754477003877 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 754477003878 homodimer interface [polypeptide binding]; other site 754477003879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477003880 catalytic residue [active] 754477003881 homoserine dehydrogenase; Provisional; Region: PRK06349 754477003882 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 754477003883 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 754477003884 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 754477003885 aminotransferase; Validated; Region: PRK08175 754477003886 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 754477003887 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477003888 homodimer interface [polypeptide binding]; other site 754477003889 catalytic residue [active] 754477003890 HDOD domain; Region: HDOD; pfam08668 754477003891 Predicted membrane protein [Function unknown]; Region: COG2259 754477003892 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 754477003893 DNA binding site [nucleotide binding] 754477003894 active site 754477003895 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 754477003896 classical (c) SDRs; Region: SDR_c; cd05233 754477003897 NAD(P) binding site [chemical binding]; other site 754477003898 active site 754477003899 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 754477003900 dimer interface [polypeptide binding]; other site 754477003901 catalytic residues [active] 754477003902 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 754477003903 NlpC/P60 family; Region: NLPC_P60; pfam00877 754477003904 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 754477003905 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 754477003906 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 754477003907 trimer interface [polypeptide binding]; other site 754477003908 putative metal binding site [ion binding]; other site 754477003909 ABC-2 type transporter; Region: ABC2_membrane; cl17235 754477003910 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 754477003911 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 754477003912 Walker A/P-loop; other site 754477003913 ATP binding site [chemical binding]; other site 754477003914 Q-loop/lid; other site 754477003915 ABC transporter signature motif; other site 754477003916 Walker B; other site 754477003917 D-loop; other site 754477003918 H-loop/switch region; other site 754477003919 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 754477003920 putative outer membrane receptor; Provisional; Region: PRK13513 754477003921 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477003922 N-terminal plug; other site 754477003923 ligand-binding site [chemical binding]; other site 754477003924 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 754477003925 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 754477003926 dimer interface [polypeptide binding]; other site 754477003927 phosphorylation site [posttranslational modification] 754477003928 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 754477003929 ATP binding site [chemical binding]; other site 754477003930 Mg2+ binding site [ion binding]; other site 754477003931 G-X-G motif; other site 754477003932 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 754477003933 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 754477003934 active site 754477003935 phosphorylation site [posttranslational modification] 754477003936 intermolecular recognition site; other site 754477003937 dimerization interface [polypeptide binding]; other site 754477003938 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 754477003939 DNA binding site [nucleotide binding] 754477003940 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 754477003941 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 754477003942 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 754477003943 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 754477003944 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 754477003945 putative catalytic site [active] 754477003946 putative metal binding site [ion binding]; other site 754477003947 putative phosphate binding site [ion binding]; other site 754477003948 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 754477003949 Uncharacterized conserved protein [Function unknown]; Region: COG3422 754477003950 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 754477003951 Protein of unknown function, DUF393; Region: DUF393; cl01136 754477003952 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 754477003953 putative active site [active] 754477003954 metal binding site [ion binding]; metal-binding site 754477003955 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 754477003956 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 754477003957 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 754477003958 dimer interface [polypeptide binding]; other site 754477003959 putative anticodon binding site; other site 754477003960 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 754477003961 motif 1; other site 754477003962 active site 754477003963 motif 2; other site 754477003964 motif 3; other site 754477003965 peptide chain release factor 2; Validated; Region: prfB; PRK00578 754477003966 This domain is found in peptide chain release factors; Region: PCRF; smart00937 754477003967 RF-1 domain; Region: RF-1; pfam00472 754477003968 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 754477003969 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 754477003970 Peptidase family M23; Region: Peptidase_M23; pfam01551 754477003971 Predicted membrane protein [Function unknown]; Region: COG1238 754477003972 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 754477003973 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 754477003974 S-adenosylmethionine binding site [chemical binding]; other site 754477003975 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 754477003976 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 754477003977 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 754477003978 CAP-like domain; other site 754477003979 active site 754477003980 primary dimer interface [polypeptide binding]; other site 754477003981 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 754477003982 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 754477003983 Mg2+ binding site [ion binding]; other site 754477003984 G-X-G motif; other site 754477003985 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 754477003986 anchoring element; other site 754477003987 dimer interface [polypeptide binding]; other site 754477003988 ATP binding site [chemical binding]; other site 754477003989 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 754477003990 active site 754477003991 metal binding site [ion binding]; metal-binding site 754477003992 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 754477003993 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 754477003994 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 754477003995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477003996 homodimer interface [polypeptide binding]; other site 754477003997 catalytic residue [active] 754477003998 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 754477003999 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 754477004000 Methyltransferase domain; Region: Methyltransf_31; pfam13847 754477004001 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 754477004002 S-adenosylmethionine binding site [chemical binding]; other site 754477004003 intersubunit interface [polypeptide binding]; other site 754477004004 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 754477004005 active site 754477004006 Zn2+ binding site [ion binding]; other site 754477004007 TPR repeat; Region: TPR_11; pfam13414 754477004008 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 754477004009 binding surface 754477004010 TPR motif; other site 754477004011 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 754477004012 binding surface 754477004013 TPR motif; other site 754477004014 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 754477004015 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 754477004016 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 754477004017 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 754477004018 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 754477004019 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 754477004020 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 754477004021 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 754477004022 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 754477004023 active site 754477004024 phosphorylation site [posttranslational modification] 754477004025 intermolecular recognition site; other site 754477004026 dimerization interface [polypeptide binding]; other site 754477004027 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; cl17315 754477004028 dimerization interface [polypeptide binding]; other site 754477004029 DNA binding residues [nucleotide binding] 754477004030 HAMP domain; Region: HAMP; pfam00672 754477004031 dimerization interface [polypeptide binding]; other site 754477004032 Histidine kinase; Region: HisKA_3; pfam07730 754477004033 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 754477004034 ATP binding site [chemical binding]; other site 754477004035 Mg2+ binding site [ion binding]; other site 754477004036 G-X-G motif; other site 754477004037 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 754477004038 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 754477004039 inhibitor-cofactor binding pocket; inhibition site 754477004040 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477004041 catalytic residue [active] 754477004042 exonuclease I; Provisional; Region: sbcB; PRK11779 754477004043 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 754477004044 active site 754477004045 catalytic site [active] 754477004046 substrate binding site [chemical binding]; other site 754477004047 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 754477004048 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 754477004049 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 754477004050 Isochorismatase family; Region: Isochorismatase; pfam00857 754477004051 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 754477004052 catalytic triad [active] 754477004053 dimer interface [polypeptide binding]; other site 754477004054 conserved cis-peptide bond; other site 754477004055 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 754477004056 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 754477004057 active site residue [active] 754477004058 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 754477004059 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 754477004060 S-adenosylmethionine binding site [chemical binding]; other site 754477004061 ABC-2 type transporter; Region: ABC2_membrane; cl17235 754477004062 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 754477004063 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 754477004064 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477004065 Walker A/P-loop; other site 754477004066 ATP binding site [chemical binding]; other site 754477004067 Q-loop/lid; other site 754477004068 ABC transporter signature motif; other site 754477004069 Walker B; other site 754477004070 D-loop; other site 754477004071 H-loop/switch region; other site 754477004072 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 754477004073 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 754477004074 FeS/SAM binding site; other site 754477004075 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 754477004076 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 754477004077 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 754477004078 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 754477004079 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 754477004080 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 754477004081 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 754477004082 Trp docking motif [polypeptide binding]; other site 754477004083 dimer interface [polypeptide binding]; other site 754477004084 active site 754477004085 small subunit binding site [polypeptide binding]; other site 754477004086 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 754477004087 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 754477004088 active site 754477004089 phosphorylation site [posttranslational modification] 754477004090 intermolecular recognition site; other site 754477004091 dimerization interface [polypeptide binding]; other site 754477004092 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 754477004093 DNA binding residues [nucleotide binding] 754477004094 dimerization interface [polypeptide binding]; other site 754477004095 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 754477004096 Histidine kinase; Region: HisKA_3; pfam07730 754477004097 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 754477004098 ATP binding site [chemical binding]; other site 754477004099 Mg2+ binding site [ion binding]; other site 754477004100 G-X-G motif; other site 754477004101 response regulator; Provisional; Region: PRK09483 754477004102 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 754477004103 active site 754477004104 phosphorylation site [posttranslational modification] 754477004105 intermolecular recognition site; other site 754477004106 dimerization interface [polypeptide binding]; other site 754477004107 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 754477004108 DNA binding residues [nucleotide binding] 754477004109 dimerization interface [polypeptide binding]; other site 754477004110 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 754477004111 dimerization interface [polypeptide binding]; other site 754477004112 PAS fold; Region: PAS; pfam00989 754477004113 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 754477004114 putative active site [active] 754477004115 heme pocket [chemical binding]; other site 754477004116 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 754477004117 Histidine kinase; Region: HisKA_3; pfam07730 754477004118 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 754477004119 ATP binding site [chemical binding]; other site 754477004120 Mg2+ binding site [ion binding]; other site 754477004121 G-X-G motif; other site 754477004122 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 754477004123 Predicted secreted protein [Function unknown]; Region: COG5501 754477004124 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 754477004125 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 754477004126 Peptidase family M48; Region: Peptidase_M48; pfam01435 754477004127 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 754477004128 CPxP motif; other site 754477004129 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 754477004130 Protein of unknown function (DUF502); Region: DUF502; pfam04367 754477004131 Helix-turn-helix domain; Region: HTH_17; pfam12728 754477004132 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 754477004133 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 754477004134 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 754477004135 catalytic triad [active] 754477004136 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 754477004137 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 754477004138 Type IV secretion system proteins; Region: T4SS; pfam07996 754477004139 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 754477004140 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 754477004141 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 754477004142 sequence-specific DNA binding site [nucleotide binding]; other site 754477004143 salt bridge; other site 754477004144 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 754477004145 HicB family; Region: HicB; pfam05534 754477004146 Divergent AAA domain; Region: AAA_4; pfam04326 754477004147 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 754477004148 DNA methylase; Region: N6_N4_Mtase; pfam01555 754477004149 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 754477004150 catalytic residues [active] 754477004151 Int/Topo IB signature motif; other site 754477004152 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 754477004153 putative active site [active] 754477004154 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 754477004155 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 754477004156 Na binding site [ion binding]; other site 754477004157 Protein of unknown function, DUF485; Region: DUF485; pfam04341 754477004158 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 754477004159 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 754477004160 active site 754477004161 phosphorylation site [posttranslational modification] 754477004162 intermolecular recognition site; other site 754477004163 dimerization interface [polypeptide binding]; other site 754477004164 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 754477004165 Zn2+ binding site [ion binding]; other site 754477004166 Mg2+ binding site [ion binding]; other site 754477004167 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 754477004168 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 754477004169 dimer interface [polypeptide binding]; other site 754477004170 phosphorylation site [posttranslational modification] 754477004171 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 754477004172 ATP binding site [chemical binding]; other site 754477004173 Mg2+ binding site [ion binding]; other site 754477004174 G-X-G motif; other site 754477004175 Response regulator receiver domain; Region: Response_reg; pfam00072 754477004176 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 754477004177 active site 754477004178 phosphorylation site [posttranslational modification] 754477004179 intermolecular recognition site; other site 754477004180 dimerization interface [polypeptide binding]; other site 754477004181 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 754477004182 putative binding surface; other site 754477004183 active site 754477004184 enoyl-CoA hydratase; Validated; Region: PRK08788 754477004185 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 754477004186 substrate binding site [chemical binding]; other site 754477004187 oxyanion hole (OAH) forming residues; other site 754477004188 trimer interface [polypeptide binding]; other site 754477004189 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 754477004190 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 754477004191 active site 754477004192 Zn binding site [ion binding]; other site 754477004193 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 754477004194 PAS domain; Region: PAS_9; pfam13426 754477004195 putative active site [active] 754477004196 heme pocket [chemical binding]; other site 754477004197 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477004198 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477004199 metal binding site [ion binding]; metal-binding site 754477004200 active site 754477004201 I-site; other site 754477004202 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 754477004203 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 754477004204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 754477004205 NAD(P) binding site [chemical binding]; other site 754477004206 active site 754477004207 ferrochelatase; Reviewed; Region: hemH; PRK00035 754477004208 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 754477004209 C-terminal domain interface [polypeptide binding]; other site 754477004210 active site 754477004211 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 754477004212 active site 754477004213 N-terminal domain interface [polypeptide binding]; other site 754477004214 FlgN protein; Region: FlgN; pfam05130 754477004215 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 754477004216 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 754477004217 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 754477004218 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 754477004219 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 754477004220 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 754477004221 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 754477004222 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 754477004223 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 754477004224 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 754477004225 Walker A/P-loop; other site 754477004226 ATP binding site [chemical binding]; other site 754477004227 Q-loop/lid; other site 754477004228 ABC transporter signature motif; other site 754477004229 Walker B; other site 754477004230 D-loop; other site 754477004231 H-loop/switch region; other site 754477004232 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 754477004233 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 754477004234 PBP superfamily domain; Region: PBP_like; pfam12727 754477004235 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 754477004236 trimer interface [polypeptide binding]; other site 754477004237 dimer interface [polypeptide binding]; other site 754477004238 putative active site [active] 754477004239 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 754477004240 MoaE interaction surface [polypeptide binding]; other site 754477004241 MoeB interaction surface [polypeptide binding]; other site 754477004242 thiocarboxylated glycine; other site 754477004243 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 754477004244 MoaE homodimer interface [polypeptide binding]; other site 754477004245 MoaD interaction [polypeptide binding]; other site 754477004246 active site residues [active] 754477004247 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 754477004248 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 754477004249 putative dimer interface [polypeptide binding]; other site 754477004250 [2Fe-2S] cluster binding site [ion binding]; other site 754477004251 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 754477004252 putative dimer interface [polypeptide binding]; other site 754477004253 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 754477004254 SLBB domain; Region: SLBB; pfam10531 754477004255 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 754477004256 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 754477004257 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 754477004258 catalytic loop [active] 754477004259 iron binding site [ion binding]; other site 754477004260 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 754477004261 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 754477004262 [4Fe-4S] binding site [ion binding]; other site 754477004263 molybdopterin cofactor binding site; other site 754477004264 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 754477004265 molybdopterin cofactor binding site; other site 754477004266 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 754477004267 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 754477004268 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 754477004269 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 754477004270 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 754477004271 DNA binding site [nucleotide binding] 754477004272 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 754477004273 TIR domain; Region: TIR_2; pfam13676 754477004274 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 754477004275 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 754477004276 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 754477004277 Chromate transporter; Region: Chromate_transp; pfam02417 754477004278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 754477004279 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 754477004280 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 754477004281 NADH(P)-binding; Region: NAD_binding_10; pfam13460 754477004282 NAD(P) binding site [chemical binding]; other site 754477004283 putative active site [active] 754477004284 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 754477004285 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 754477004286 non-specific DNA binding site [nucleotide binding]; other site 754477004287 salt bridge; other site 754477004288 sequence-specific DNA binding site [nucleotide binding]; other site 754477004289 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 754477004290 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 754477004291 hypothetical protein; Provisional; Region: PRK11019 754477004292 oligopeptidase A; Provisional; Region: PRK10911 754477004293 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 754477004294 active site 754477004295 Zn binding site [ion binding]; other site 754477004296 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 754477004297 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 754477004298 putative active site [active] 754477004299 putative metal binding site [ion binding]; other site 754477004300 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 754477004301 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 754477004302 VacJ like lipoprotein; Region: VacJ; cl01073 754477004303 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 754477004304 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 754477004305 putative active site [active] 754477004306 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 754477004307 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 754477004308 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 754477004309 active site 754477004310 motif I; other site 754477004311 motif II; other site 754477004312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 754477004313 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 754477004314 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 754477004315 OstA-like protein; Region: OstA; pfam03968 754477004316 Bacterial SH3 domain; Region: SH3_3; pfam08239 754477004317 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 754477004318 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 754477004319 Walker A/P-loop; other site 754477004320 ATP binding site [chemical binding]; other site 754477004321 Q-loop/lid; other site 754477004322 ABC transporter signature motif; other site 754477004323 Walker B; other site 754477004324 D-loop; other site 754477004325 H-loop/switch region; other site 754477004326 NMT1/THI5 like; Region: NMT1; pfam09084 754477004327 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 754477004328 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 754477004329 putative active site [active] 754477004330 heme pocket [chemical binding]; other site 754477004331 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 754477004332 dimer interface [polypeptide binding]; other site 754477004333 phosphorylation site [posttranslational modification] 754477004334 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 754477004335 ATP binding site [chemical binding]; other site 754477004336 Mg2+ binding site [ion binding]; other site 754477004337 G-X-G motif; other site 754477004338 Response regulator receiver domain; Region: Response_reg; pfam00072 754477004339 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 754477004340 active site 754477004341 phosphorylation site [posttranslational modification] 754477004342 intermolecular recognition site; other site 754477004343 dimerization interface [polypeptide binding]; other site 754477004344 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 754477004345 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 754477004346 generic binding surface II; other site 754477004347 generic binding surface I; other site 754477004348 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 754477004349 NAD binding site [chemical binding]; other site 754477004350 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 754477004351 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 754477004352 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 754477004353 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 754477004354 active site 754477004355 GMP synthase; Reviewed; Region: guaA; PRK00074 754477004356 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 754477004357 AMP/PPi binding site [chemical binding]; other site 754477004358 candidate oxyanion hole; other site 754477004359 catalytic triad [active] 754477004360 potential glutamine specificity residues [chemical binding]; other site 754477004361 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 754477004362 ATP Binding subdomain [chemical binding]; other site 754477004363 Ligand Binding sites [chemical binding]; other site 754477004364 Dimerization subdomain; other site 754477004365 integrase; Provisional; Region: PRK09692 754477004366 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 754477004367 active site 754477004368 Int/Topo IB signature motif; other site 754477004369 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 754477004370 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 754477004371 Catalytic site [active] 754477004372 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 754477004373 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 754477004374 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 754477004375 Helix-turn-helix domain; Region: HTH_36; pfam13730 754477004376 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 754477004377 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 754477004378 Mg binding site [ion binding]; other site 754477004379 nucleotide binding site [chemical binding]; other site 754477004380 putative protofilament interface [polypeptide binding]; other site 754477004381 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 754477004382 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 754477004383 MPN+ (JAMM) motif; other site 754477004384 Zinc-binding site [ion binding]; other site 754477004385 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 754477004386 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 754477004387 active site 754477004388 catalytic residues [active] 754477004389 DNA binding site [nucleotide binding] 754477004390 Int/Topo IB signature motif; other site 754477004391 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 754477004392 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 754477004393 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 754477004394 N-acetyl-D-glucosamine binding site [chemical binding]; other site 754477004395 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 754477004396 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 754477004397 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 754477004398 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 754477004399 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 754477004400 RES domain; Region: RES; smart00953 754477004401 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 754477004402 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 754477004403 active site 754477004404 catalytic site [active] 754477004405 substrate binding site [chemical binding]; other site 754477004406 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 754477004407 putative active site [active] 754477004408 putative NTP binding site [chemical binding]; other site 754477004409 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 754477004410 putative nucleic acid binding site [nucleotide binding]; other site 754477004411 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 754477004412 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 754477004413 putative active site [active] 754477004414 putative NTP binding site [chemical binding]; other site 754477004415 putative nucleic acid binding site [nucleotide binding]; other site 754477004416 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 754477004417 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 754477004418 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 754477004419 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 754477004420 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 754477004421 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 754477004422 integrating conjugative element protein, PFL_4704 family; Region: conj_TIGR03749 754477004423 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 754477004424 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 754477004425 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 754477004426 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 754477004427 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 754477004428 Nuclease-related domain; Region: NERD; pfam08378 754477004429 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 754477004430 Protein of unknown function (DUF1525); Region: DUF1525; cl06515 754477004431 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 754477004432 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 754477004433 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 754477004434 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 754477004435 PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal)...; Region: PDZ_signaling; cd00992 754477004436 protein binding site [polypeptide binding]; other site 754477004437 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 754477004438 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 754477004439 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 754477004440 ATP binding site [chemical binding]; other site 754477004441 Mg2+ binding site [ion binding]; other site 754477004442 G-X-G motif; other site 754477004443 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 754477004444 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 754477004445 active site 754477004446 phosphorylation site [posttranslational modification] 754477004447 intermolecular recognition site; other site 754477004448 dimerization interface [polypeptide binding]; other site 754477004449 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 754477004450 DNA binding site [nucleotide binding] 754477004451 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 754477004452 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 754477004453 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 754477004454 active site 754477004455 metal binding site [ion binding]; metal-binding site 754477004456 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 754477004457 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 754477004458 Sel1-like repeats; Region: SEL1; smart00671 754477004459 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 754477004460 HD domain; Region: HD_4; pfam13328 754477004461 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 754477004462 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 754477004463 non-specific DNA binding site [nucleotide binding]; other site 754477004464 salt bridge; other site 754477004465 sequence-specific DNA binding site [nucleotide binding]; other site 754477004466 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 754477004467 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 754477004468 Sel1-like repeats; Region: SEL1; smart00671 754477004469 Cache domain; Region: Cache_1; pfam02743 754477004470 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477004471 metal binding site [ion binding]; metal-binding site 754477004472 active site 754477004473 I-site; other site 754477004474 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 754477004475 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 754477004476 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 754477004477 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 754477004478 dimer interface [polypeptide binding]; other site 754477004479 conserved gate region; other site 754477004480 putative PBP binding loops; other site 754477004481 ABC-ATPase subunit interface; other site 754477004482 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 754477004483 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477004484 Walker A/P-loop; other site 754477004485 ATP binding site [chemical binding]; other site 754477004486 Q-loop/lid; other site 754477004487 ABC transporter signature motif; other site 754477004488 Walker B; other site 754477004489 D-loop; other site 754477004490 H-loop/switch region; other site 754477004491 TOBE domain; Region: TOBE; pfam03459 754477004492 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 754477004493 catalytic core [active] 754477004494 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 754477004495 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 754477004496 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 754477004497 Predicted nucleotidyltransferase [General function prediction only]; Region: COG1665 754477004498 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 754477004499 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 754477004500 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 754477004501 GTP/Mg2+ binding site [chemical binding]; other site 754477004502 G4 box; other site 754477004503 G5 box; other site 754477004504 G1 box; other site 754477004505 Switch I region; other site 754477004506 G2 box; other site 754477004507 G3 box; other site 754477004508 Switch II region; other site 754477004509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 754477004510 HopJ type III effector protein; Region: HopJ; pfam08888 754477004511 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 754477004512 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 754477004513 ligand binding site [chemical binding]; other site 754477004514 NAD binding site [chemical binding]; other site 754477004515 tetramer interface [polypeptide binding]; other site 754477004516 catalytic site [active] 754477004517 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 754477004518 L-serine binding site [chemical binding]; other site 754477004519 ACT domain interface; other site 754477004520 D-lactate dehydrogenase; Provisional; Region: PRK11183 754477004521 FAD binding domain; Region: FAD_binding_4; pfam01565 754477004522 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 754477004523 Bacitracin resistance protein BacA; Region: BacA; pfam02673 754477004524 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 754477004525 23S rRNA interface [nucleotide binding]; other site 754477004526 L3 interface [polypeptide binding]; other site 754477004527 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 754477004528 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 754477004529 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 754477004530 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 754477004531 putative acyl-acceptor binding pocket; other site 754477004532 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 754477004533 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 754477004534 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 754477004535 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 754477004536 nucleoside/Zn binding site; other site 754477004537 dimer interface [polypeptide binding]; other site 754477004538 catalytic motif [active] 754477004539 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 754477004540 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 754477004541 substrate binding pocket [chemical binding]; other site 754477004542 membrane-bound complex binding site; other site 754477004543 hinge residues; other site 754477004544 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 754477004545 N-acetyl-D-glucosamine binding site [chemical binding]; other site 754477004546 catalytic residue [active] 754477004547 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 754477004548 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 754477004549 catalytic residues [active] 754477004550 hinge region; other site 754477004551 alpha helical domain; other site 754477004552 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 754477004553 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 754477004554 ResB-like family; Region: ResB; pfam05140 754477004555 ResB-like family; Region: ResB; pfam05140 754477004556 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 754477004557 Cytochrome c553 [Energy production and conversion]; Region: COG2863 754477004558 Cytochrome c; Region: Cytochrom_C; pfam00034 754477004559 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 754477004560 G1 box; other site 754477004561 GTP/Mg2+ binding site [chemical binding]; other site 754477004562 Switch I region; other site 754477004563 G2 box; other site 754477004564 G3 box; other site 754477004565 Switch II region; other site 754477004566 G4 box; other site 754477004567 G5 box; other site 754477004568 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 754477004569 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 754477004570 active site pocket [active] 754477004571 SnoaL-like domain; Region: SnoaL_3; pfam13474 754477004572 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 754477004573 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 754477004574 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 754477004575 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 754477004576 PAS domain S-box; Region: sensory_box; TIGR00229 754477004577 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 754477004578 putative active site [active] 754477004579 heme pocket [chemical binding]; other site 754477004580 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 754477004581 PAS fold; Region: PAS_3; pfam08447 754477004582 putative active site [active] 754477004583 heme pocket [chemical binding]; other site 754477004584 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 754477004585 dimer interface [polypeptide binding]; other site 754477004586 phosphorylation site [posttranslational modification] 754477004587 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 754477004588 ATP binding site [chemical binding]; other site 754477004589 Mg2+ binding site [ion binding]; other site 754477004590 G-X-G motif; other site 754477004591 Response regulator receiver domain; Region: Response_reg; pfam00072 754477004592 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 754477004593 active site 754477004594 phosphorylation site [posttranslational modification] 754477004595 intermolecular recognition site; other site 754477004596 dimerization interface [polypeptide binding]; other site 754477004597 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 754477004598 putative binding surface; other site 754477004599 active site 754477004600 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 754477004601 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 754477004602 active site 754477004603 phosphorylation site [posttranslational modification] 754477004604 intermolecular recognition site; other site 754477004605 dimerization interface [polypeptide binding]; other site 754477004606 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 754477004607 Zn2+ binding site [ion binding]; other site 754477004608 Mg2+ binding site [ion binding]; other site 754477004609 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 754477004610 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 754477004611 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 754477004612 ligand binding site [chemical binding]; other site 754477004613 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 754477004614 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 754477004615 Walker A motif; other site 754477004616 ATP binding site [chemical binding]; other site 754477004617 Walker B motif; other site 754477004618 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 754477004619 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 754477004620 Walker A motif; other site 754477004621 ATP binding site [chemical binding]; other site 754477004622 Walker B motif; other site 754477004623 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 754477004624 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 754477004625 catalytic residue [active] 754477004626 pyrroline-5-carboxylate reductase; Region: PLN02688 754477004627 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 754477004628 YGGT family; Region: YGGT; pfam02325 754477004629 YGGT family; Region: YGGT; pfam02325 754477004630 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 754477004631 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 754477004632 Methyltransferase domain; Region: Methyltransf_23; pfam13489 754477004633 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 754477004634 S-adenosylmethionine binding site [chemical binding]; other site 754477004635 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 754477004636 active site 754477004637 hypothetical protein; Provisional; Region: PRK10621 754477004638 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 754477004639 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 754477004640 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 754477004641 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477004642 homodimer interface [polypeptide binding]; other site 754477004643 catalytic residue [active] 754477004644 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 754477004645 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 754477004646 NAD binding site [chemical binding]; other site 754477004647 dimerization interface [polypeptide binding]; other site 754477004648 product binding site; other site 754477004649 substrate binding site [chemical binding]; other site 754477004650 zinc binding site [ion binding]; other site 754477004651 catalytic residues [active] 754477004652 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 754477004653 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 754477004654 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 754477004655 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 754477004656 hinge; other site 754477004657 active site 754477004658 BolA-like protein; Region: BolA; cl00386 754477004659 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 754477004660 anti sigma factor interaction site; other site 754477004661 regulatory phosphorylation site [posttranslational modification]; other site 754477004662 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 754477004663 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 754477004664 mce related protein; Region: MCE; pfam02470 754477004665 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 754477004666 Permease; Region: Permease; cl00510 754477004667 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 754477004668 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 754477004669 Walker A/P-loop; other site 754477004670 ATP binding site [chemical binding]; other site 754477004671 Q-loop/lid; other site 754477004672 ABC transporter signature motif; other site 754477004673 Walker B; other site 754477004674 D-loop; other site 754477004675 H-loop/switch region; other site 754477004676 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 754477004677 putative hydrophobic ligand binding site [chemical binding]; other site 754477004678 protein interface [polypeptide binding]; other site 754477004679 gate; other site 754477004680 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 754477004681 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 754477004682 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 754477004683 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 754477004684 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 754477004685 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 754477004686 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 754477004687 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 754477004688 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 754477004689 recombination factor protein RarA; Reviewed; Region: PRK13342 754477004690 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 754477004691 Walker A motif; other site 754477004692 ATP binding site [chemical binding]; other site 754477004693 Walker B motif; other site 754477004694 arginine finger; other site 754477004695 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 754477004696 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 754477004697 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 754477004698 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 754477004699 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 754477004700 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 754477004701 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 754477004702 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 754477004703 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 754477004704 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 754477004705 Ligand Binding Site [chemical binding]; other site 754477004706 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 754477004707 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477004708 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477004709 metal binding site [ion binding]; metal-binding site 754477004710 active site 754477004711 I-site; other site 754477004712 Peptidase family M48; Region: Peptidase_M48; cl12018 754477004713 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 754477004714 catalytic site [active] 754477004715 putative active site [active] 754477004716 putative substrate binding site [chemical binding]; other site 754477004717 dimer interface [polypeptide binding]; other site 754477004718 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 754477004719 active site 754477004720 catalytic site [active] 754477004721 substrate binding site [chemical binding]; other site 754477004722 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 754477004723 GIY-YIG motif/motif A; other site 754477004724 active site 754477004725 catalytic site [active] 754477004726 putative DNA binding site [nucleotide binding]; other site 754477004727 metal binding site [ion binding]; metal-binding site 754477004728 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 754477004729 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 754477004730 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 754477004731 DNA photolyase; Region: DNA_photolyase; pfam00875 754477004732 flavodoxin FldA; Validated; Region: PRK09267 754477004733 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 754477004734 epoxyqueuosine reductase; Region: TIGR00276 754477004735 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 754477004736 putative carbohydrate kinase; Provisional; Region: PRK10565 754477004737 Uncharacterized conserved protein [Function unknown]; Region: COG0062 754477004738 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 754477004739 putative substrate binding site [chemical binding]; other site 754477004740 putative ATP binding site [chemical binding]; other site 754477004741 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 754477004742 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 754477004743 AMIN domain; Region: AMIN; pfam11741 754477004744 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 754477004745 active site 754477004746 metal binding site [ion binding]; metal-binding site 754477004747 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 754477004748 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 754477004749 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 754477004750 ATP binding site [chemical binding]; other site 754477004751 Mg2+ binding site [ion binding]; other site 754477004752 G-X-G motif; other site 754477004753 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 754477004754 ATP binding site [chemical binding]; other site 754477004755 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 754477004756 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 754477004757 Gram-negative porin; Region: Porin_4; pfam13609 754477004758 DAK2 domain; Region: Dak2; cl03685 754477004759 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 754477004760 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 754477004761 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 754477004762 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 754477004763 active site 754477004764 motif I; other site 754477004765 motif II; other site 754477004766 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 754477004767 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 754477004768 phosphate binding site [ion binding]; other site 754477004769 transaldolase-like protein; Provisional; Region: PTZ00411 754477004770 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 754477004771 active site 754477004772 dimer interface [polypeptide binding]; other site 754477004773 catalytic residue [active] 754477004774 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 754477004775 active site 754477004776 dimer interface [polypeptide binding]; other site 754477004777 magnesium binding site [ion binding]; other site 754477004778 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 754477004779 tetramer interface [polypeptide binding]; other site 754477004780 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 754477004781 active site 754477004782 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 754477004783 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 754477004784 substrate binding site [chemical binding]; other site 754477004785 ligand binding site [chemical binding]; other site 754477004786 HemK family putative methylases; Region: hemK_fam; TIGR00536 754477004787 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 754477004788 S-adenosylmethionine binding site [chemical binding]; other site 754477004789 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 754477004790 active site 754477004791 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 754477004792 phosphorylation site [posttranslational modification] 754477004793 intermolecular recognition site; other site 754477004794 dimerization interface [polypeptide binding]; other site 754477004795 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 754477004796 active site 754477004797 phosphorylation site [posttranslational modification] 754477004798 intermolecular recognition site; other site 754477004799 dimerization interface [polypeptide binding]; other site 754477004800 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477004801 metal binding site [ion binding]; metal-binding site 754477004802 active site 754477004803 I-site; other site 754477004804 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 754477004805 putative DNA-binding cleft [nucleotide binding]; other site 754477004806 putative DNA clevage site; other site 754477004807 molecular lever; other site 754477004808 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 754477004809 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 754477004810 Walker A/P-loop; other site 754477004811 ATP binding site [chemical binding]; other site 754477004812 Q-loop/lid; other site 754477004813 ABC transporter signature motif; other site 754477004814 Walker B; other site 754477004815 D-loop; other site 754477004816 H-loop/switch region; other site 754477004817 inner membrane transport permease; Provisional; Region: PRK15066 754477004818 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 754477004819 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 754477004820 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 754477004821 FMN binding site [chemical binding]; other site 754477004822 active site 754477004823 catalytic residues [active] 754477004824 substrate binding site [chemical binding]; other site 754477004825 Protein of unknown function DUF45; Region: DUF45; pfam01863 754477004826 S-adenosylmethionine synthetase; Validated; Region: PRK05250 754477004827 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 754477004828 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 754477004829 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 754477004830 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 754477004831 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 754477004832 homotetramer interface [polypeptide binding]; other site 754477004833 ligand binding site [chemical binding]; other site 754477004834 catalytic site [active] 754477004835 NAD binding site [chemical binding]; other site 754477004836 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 754477004837 FAD binding site [chemical binding]; other site 754477004838 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 754477004839 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 754477004840 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 754477004841 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 754477004842 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 754477004843 30S subunit binding site; other site 754477004844 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 754477004845 active site 754477004846 phosphorylation site [posttranslational modification] 754477004847 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 754477004848 Hpr binding site; other site 754477004849 active site 754477004850 homohexamer subunit interaction site [polypeptide binding]; other site 754477004851 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 754477004852 active pocket/dimerization site; other site 754477004853 active site 754477004854 phosphorylation site [posttranslational modification] 754477004855 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 754477004856 dimerization domain swap beta strand [polypeptide binding]; other site 754477004857 regulatory protein interface [polypeptide binding]; other site 754477004858 active site 754477004859 regulatory phosphorylation site [posttranslational modification]; other site 754477004860 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 754477004861 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 754477004862 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 754477004863 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 754477004864 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 754477004865 MgtE intracellular N domain; Region: MgtE_N; smart00924 754477004866 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 754477004867 Divalent cation transporter; Region: MgtE; cl00786 754477004868 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 754477004869 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 754477004870 Tetramer interface [polypeptide binding]; other site 754477004871 active site 754477004872 FMN-binding site [chemical binding]; other site 754477004873 MFS_1 like family; Region: MFS_1_like; pfam12832 754477004874 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 754477004875 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 754477004876 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 754477004877 E3 interaction surface; other site 754477004878 lipoyl attachment site [posttranslational modification]; other site 754477004879 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 754477004880 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 754477004881 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 754477004882 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 754477004883 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 754477004884 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 754477004885 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 754477004886 catalytic loop [active] 754477004887 iron binding site [ion binding]; other site 754477004888 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 754477004889 FAD binding pocket [chemical binding]; other site 754477004890 FAD binding motif [chemical binding]; other site 754477004891 phosphate binding motif [ion binding]; other site 754477004892 beta-alpha-beta structure motif; other site 754477004893 NAD binding pocket [chemical binding]; other site 754477004894 FOG: CBS domain [General function prediction only]; Region: COG0517 754477004895 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_16; cd04629 754477004896 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 754477004897 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 754477004898 dimer interface [polypeptide binding]; other site 754477004899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477004900 catalytic residue [active] 754477004901 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 754477004902 Catalytic site [active] 754477004903 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 754477004904 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 754477004905 active site 754477004906 DNA binding site [nucleotide binding] 754477004907 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 754477004908 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 754477004909 Transposase; Region: HTH_Tnp_1; pfam01527 754477004910 HTH-like domain; Region: HTH_21; pfam13276 754477004911 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 754477004912 Ligand Binding Site [chemical binding]; other site 754477004913 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 754477004914 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 754477004915 FeS/SAM binding site; other site 754477004916 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 754477004917 Tetratricopeptide repeat; Region: TPR_6; pfam13174 754477004918 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 754477004919 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 754477004920 ligand binding site [chemical binding]; other site 754477004921 translocation protein TolB; Provisional; Region: tolB; PRK04922 754477004922 TolB amino-terminal domain; Region: TolB_N; pfam04052 754477004923 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 754477004924 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 754477004925 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 754477004926 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 754477004927 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 754477004928 TolA protein; Region: tolA_full; TIGR02794 754477004929 TonB C terminal; Region: TonB_2; pfam13103 754477004930 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 754477004931 TolR protein; Region: tolR; TIGR02801 754477004932 TolQ protein; Region: tolQ; TIGR02796 754477004933 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 754477004934 active site 754477004935 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 754477004936 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 754477004937 Walker A motif; other site 754477004938 ATP binding site [chemical binding]; other site 754477004939 Walker B motif; other site 754477004940 arginine finger; other site 754477004941 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 754477004942 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 754477004943 RuvA N terminal domain; Region: RuvA_N; pfam01330 754477004944 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 754477004945 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 754477004946 active site 754477004947 putative DNA-binding cleft [nucleotide binding]; other site 754477004948 dimer interface [polypeptide binding]; other site 754477004949 hypothetical protein; Validated; Region: PRK00110 754477004950 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 754477004951 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 754477004952 homodimer interface [polypeptide binding]; other site 754477004953 substrate-cofactor binding pocket; other site 754477004954 catalytic residue [active] 754477004955 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 754477004956 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 754477004957 metal binding triad; other site 754477004958 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 754477004959 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 754477004960 metal binding triad; other site 754477004961 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 754477004962 Alternative oxidase, ferritin-like diiron-binding domain; Region: AOX; cd01053 754477004963 diiron binding motif [ion binding]; other site 754477004964 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 754477004965 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 754477004966 ring oligomerisation interface [polypeptide binding]; other site 754477004967 ATP/Mg binding site [chemical binding]; other site 754477004968 stacking interactions; other site 754477004969 hinge regions; other site 754477004970 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 754477004971 oligomerisation interface [polypeptide binding]; other site 754477004972 mobile loop; other site 754477004973 roof hairpin; other site 754477004974 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 754477004975 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 754477004976 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 754477004977 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 754477004978 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 754477004979 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477004980 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477004981 metal binding site [ion binding]; metal-binding site 754477004982 active site 754477004983 I-site; other site 754477004984 Low molecular weight phosphatase family; Region: LMWPc; cl00105 754477004985 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 754477004986 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 754477004987 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 754477004988 Haem utilisation ChuX/HutX; Region: ChuX_HutX; pfam06228 754477004989 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 754477004990 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477004991 N-terminal plug; other site 754477004992 ligand-binding site [chemical binding]; other site 754477004993 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 754477004994 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 754477004995 intersubunit interface [polypeptide binding]; other site 754477004996 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 754477004997 ABC-ATPase subunit interface; other site 754477004998 dimer interface [polypeptide binding]; other site 754477004999 putative PBP binding regions; other site 754477005000 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 754477005001 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 754477005002 Walker A/P-loop; other site 754477005003 ATP binding site [chemical binding]; other site 754477005004 Q-loop/lid; other site 754477005005 ABC transporter signature motif; other site 754477005006 Walker B; other site 754477005007 D-loop; other site 754477005008 H-loop/switch region; other site 754477005009 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 754477005010 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 754477005011 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 754477005012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477005013 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 754477005014 Walker A/P-loop; other site 754477005015 ATP binding site [chemical binding]; other site 754477005016 Q-loop/lid; other site 754477005017 ABC transporter signature motif; other site 754477005018 Walker B; other site 754477005019 D-loop; other site 754477005020 H-loop/switch region; other site 754477005021 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 754477005022 N-acetylglutamate synthase; Validated; Region: PRK05279 754477005023 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 754477005024 putative feedback inhibition sensing region; other site 754477005025 putative substrate binding site [chemical binding]; other site 754477005026 putative nucleotide binding site [chemical binding]; other site 754477005027 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 754477005028 Coenzyme A binding pocket [chemical binding]; other site 754477005029 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 754477005030 putative active site [active] 754477005031 Ap4A binding site [chemical binding]; other site 754477005032 nudix motif; other site 754477005033 putative metal binding site [ion binding]; other site 754477005034 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 754477005035 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 754477005036 motif II; other site 754477005037 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 754477005038 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 754477005039 GatB domain; Region: GatB_Yqey; smart00845 754477005040 Uncharacterized conserved protein [Function unknown]; Region: COG3287 754477005041 FIST N domain; Region: FIST; pfam08495 754477005042 FIST C domain; Region: FIST_C; pfam10442 754477005043 Glutamate-cysteine ligase; Region: GshA; pfam08886 754477005044 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 754477005045 Response regulator receiver domain; Region: Response_reg; pfam00072 754477005046 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 754477005047 active site 754477005048 phosphorylation site [posttranslational modification] 754477005049 intermolecular recognition site; other site 754477005050 dimerization interface [polypeptide binding]; other site 754477005051 Response regulator receiver domain; Region: Response_reg; pfam00072 754477005052 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 754477005053 active site 754477005054 phosphorylation site [posttranslational modification] 754477005055 intermolecular recognition site; other site 754477005056 dimerization interface [polypeptide binding]; other site 754477005057 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 754477005058 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 754477005059 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 754477005060 dimer interface [polypeptide binding]; other site 754477005061 putative CheW interface [polypeptide binding]; other site 754477005062 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 754477005063 putative binding surface; other site 754477005064 active site 754477005065 Hpt domain; Region: Hpt; pfam01627 754477005066 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 754477005067 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 754477005068 putative binding surface; other site 754477005069 active site 754477005070 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 754477005071 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 754477005072 ATP binding site [chemical binding]; other site 754477005073 Mg2+ binding site [ion binding]; other site 754477005074 G-X-G motif; other site 754477005075 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 754477005076 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 754477005077 Response regulator receiver domain; Region: Response_reg; pfam00072 754477005078 active site 754477005079 phosphorylation site [posttranslational modification] 754477005080 intermolecular recognition site; other site 754477005081 dimerization interface [polypeptide binding]; other site 754477005082 CheW-like domain; Region: CheW; pfam01584 754477005083 lytic murein transglycosylase; Provisional; Region: PRK11619 754477005084 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 754477005085 N-acetyl-D-glucosamine binding site [chemical binding]; other site 754477005086 catalytic residue [active] 754477005087 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 754477005088 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 754477005089 active site 754477005090 NTP binding site [chemical binding]; other site 754477005091 metal binding triad [ion binding]; metal-binding site 754477005092 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 754477005093 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 754477005094 Zn2+ binding site [ion binding]; other site 754477005095 Mg2+ binding site [ion binding]; other site 754477005096 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional; Region: PRK02264 754477005097 Methenyltetrahydromethanopterin (methenyl-H4MPT) cyclohydrolase (MCH). MCH is a cytoplasmic enzyme that has been identified in methanogenic archaea, sulfate- reducing archaea, and methylotrophic bacteria. It catalyzes the reversible formation of N(5), N...; Region: MCH; cd00545 754477005098 trimer interface I [polypeptide binding]; other site 754477005099 putative substrate binding pocket [chemical binding]; other site 754477005100 trimer interface II [polypeptide binding]; other site 754477005101 ATP-grasp enzyme, GAK system; Region: grasp_GAK; TIGR04356 754477005102 ATP-grasp domain; Region: ATP-grasp_4; cl17255 754477005103 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 754477005104 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 754477005105 hisA/hisF family protein; Region: hisAF_rel; TIGR00734 754477005106 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 754477005107 active site 754477005108 ATP-grasp domain; Region: ATP-grasp_4; cl17255 754477005109 Predicted transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: COG1548; cl00668 754477005110 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 754477005111 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 754477005112 chorismate binding enzyme; Region: Chorismate_bind; cl10555 754477005113 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 754477005114 nucleotide binding site [chemical binding]; other site 754477005115 substrate binding site [chemical binding]; other site 754477005116 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 754477005117 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 754477005118 catalytic residue [active] 754477005119 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 754477005120 cell division protein DamX; Validated; Region: PRK10905 754477005121 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 754477005122 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 754477005123 active site 754477005124 dimer interface [polypeptide binding]; other site 754477005125 metal binding site [ion binding]; metal-binding site 754477005126 shikimate kinase; Reviewed; Region: aroK; PRK00131 754477005127 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 754477005128 ADP binding site [chemical binding]; other site 754477005129 magnesium binding site [ion binding]; other site 754477005130 putative shikimate binding site; other site 754477005131 AMIN domain; Region: AMIN; pfam11741 754477005132 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 754477005133 Secretin and TonB N terminus short domain; Region: STN; smart00965 754477005134 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 754477005135 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 754477005136 Pilus assembly protein, PilP; Region: PilP; pfam04351 754477005137 Pilus assembly protein, PilO; Region: PilO; pfam04350 754477005138 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 754477005139 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 754477005140 Competence protein A; Region: Competence_A; pfam11104 754477005141 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 754477005142 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 754477005143 Transglycosylase; Region: Transgly; pfam00912 754477005144 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 754477005145 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 754477005146 Peptidase family M48; Region: Peptidase_M48; pfam01435 754477005147 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 754477005148 Methyltransferase domain; Region: Methyltransf_31; pfam13847 754477005149 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 754477005150 S-adenosylmethionine binding site [chemical binding]; other site 754477005151 Cation transport protein; Region: TrkH; cl17365 754477005152 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 754477005153 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 754477005154 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 754477005155 putative active site [active] 754477005156 catalytic triad [active] 754477005157 putative dimer interface [polypeptide binding]; other site 754477005158 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 754477005159 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 754477005160 Transporter associated domain; Region: CorC_HlyC; smart01091 754477005161 metal-binding heat shock protein; Provisional; Region: PRK00016 754477005162 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 754477005163 PhoH-like protein; Region: PhoH; pfam02562 754477005164 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 754477005165 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 754477005166 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 754477005167 FeS/SAM binding site; other site 754477005168 TRAM domain; Region: TRAM; pfam01938 754477005169 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 754477005170 hypothetical protein; Reviewed; Region: PRK00024 754477005171 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 754477005172 MPN+ (JAMM) motif; other site 754477005173 Zinc-binding site [ion binding]; other site 754477005174 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 754477005175 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 754477005176 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 754477005177 thymidylate synthase; Reviewed; Region: thyA; PRK01827 754477005178 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 754477005179 dimerization interface [polypeptide binding]; other site 754477005180 active site 754477005181 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 754477005182 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 754477005183 Walker A motif; other site 754477005184 ATP binding site [chemical binding]; other site 754477005185 Walker B motif; other site 754477005186 arginine finger; other site 754477005187 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 754477005188 Family description; Region: DsbD_2; pfam13386 754477005189 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 754477005190 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 754477005191 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 754477005192 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 754477005193 nucleotide binding site [chemical binding]; other site 754477005194 transcriptional regulator PhoU; Provisional; Region: PRK11115 754477005195 PhoU domain; Region: PhoU; pfam01895 754477005196 PhoU domain; Region: PhoU; pfam01895 754477005197 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 754477005198 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 754477005199 Walker A/P-loop; other site 754477005200 ATP binding site [chemical binding]; other site 754477005201 Q-loop/lid; other site 754477005202 ABC transporter signature motif; other site 754477005203 Walker B; other site 754477005204 D-loop; other site 754477005205 H-loop/switch region; other site 754477005206 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 754477005207 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 754477005208 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 754477005209 dimer interface [polypeptide binding]; other site 754477005210 conserved gate region; other site 754477005211 putative PBP binding loops; other site 754477005212 ABC-ATPase subunit interface; other site 754477005213 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 754477005214 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 754477005215 dimer interface [polypeptide binding]; other site 754477005216 conserved gate region; other site 754477005217 putative PBP binding loops; other site 754477005218 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 754477005219 ABC-ATPase subunit interface; other site 754477005220 PBP superfamily domain; Region: PBP_like_2; cl17296 754477005221 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 754477005222 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 754477005223 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 754477005224 dimer interface [polypeptide binding]; other site 754477005225 phosphorylation site [posttranslational modification] 754477005226 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 754477005227 ATP binding site [chemical binding]; other site 754477005228 Mg2+ binding site [ion binding]; other site 754477005229 G-X-G motif; other site 754477005230 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 754477005231 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 754477005232 active site 754477005233 phosphorylation site [posttranslational modification] 754477005234 intermolecular recognition site; other site 754477005235 dimerization interface [polypeptide binding]; other site 754477005236 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 754477005237 DNA binding site [nucleotide binding] 754477005238 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 754477005239 Phosphate transporter family; Region: PHO4; pfam01384 754477005240 Phosphate transporter family; Region: PHO4; cl00396 754477005241 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 754477005242 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 754477005243 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 754477005244 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 754477005245 DsbD alpha interface [polypeptide binding]; other site 754477005246 catalytic residues [active] 754477005247 Dehydroquinase class II; Region: DHquinase_II; pfam01220 754477005248 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 754477005249 trimer interface [polypeptide binding]; other site 754477005250 active site 754477005251 dimer interface [polypeptide binding]; other site 754477005252 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 754477005253 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 754477005254 carboxyltransferase (CT) interaction site; other site 754477005255 biotinylation site [posttranslational modification]; other site 754477005256 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 754477005257 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 754477005258 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 754477005259 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 754477005260 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 754477005261 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 754477005262 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 754477005263 FMN binding site [chemical binding]; other site 754477005264 active site 754477005265 catalytic residues [active] 754477005266 substrate binding site [chemical binding]; other site 754477005267 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 754477005268 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 754477005269 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 754477005270 purine monophosphate binding site [chemical binding]; other site 754477005271 dimer interface [polypeptide binding]; other site 754477005272 putative catalytic residues [active] 754477005273 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 754477005274 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 754477005275 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 754477005276 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 754477005277 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 754477005278 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 754477005279 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 754477005280 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 754477005281 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 754477005282 Predicted membrane protein [Function unknown]; Region: COG4325 754477005283 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 754477005284 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 754477005285 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477005286 N-terminal plug; other site 754477005287 ligand-binding site [chemical binding]; other site 754477005288 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 754477005289 Beta-lactamase; Region: Beta-lactamase; pfam00144 754477005290 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 754477005291 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 754477005292 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 754477005293 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 754477005294 HlyD family secretion protein; Region: HlyD_3; pfam13437 754477005295 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 754477005296 Protein export membrane protein; Region: SecD_SecF; cl14618 754477005297 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 754477005298 BCCT family transporter; Region: BCCT; pfam02028 754477005299 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 754477005300 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 754477005301 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 754477005302 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 754477005303 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 754477005304 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 754477005305 trmE is a tRNA modification GTPase; Region: trmE; cd04164 754477005306 G1 box; other site 754477005307 GTP/Mg2+ binding site [chemical binding]; other site 754477005308 Switch I region; other site 754477005309 G2 box; other site 754477005310 Switch II region; other site 754477005311 G3 box; other site 754477005312 G4 box; other site 754477005313 G5 box; other site 754477005314 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 754477005315 membrane protein insertase; Provisional; Region: PRK01318 754477005316 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 754477005317 Haemolytic domain; Region: Haemolytic; cl00506 754477005318 Ribonuclease P; Region: Ribonuclease_P; cl00457 754477005319 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 754477005320 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 754477005321 DnaA N-terminal domain; Region: DnaA_N; pfam11638 754477005322 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 754477005323 Walker A motif; other site 754477005324 ATP binding site [chemical binding]; other site 754477005325 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 754477005326 Walker B motif; other site 754477005327 arginine finger; other site 754477005328 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 754477005329 DnaA box-binding interface [nucleotide binding]; other site 754477005330 DNA polymerase III subunit beta; Validated; Region: PRK05643 754477005331 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 754477005332 putative DNA binding surface [nucleotide binding]; other site 754477005333 dimer interface [polypeptide binding]; other site 754477005334 beta-clamp/clamp loader binding surface; other site 754477005335 beta-clamp/translesion DNA polymerase binding surface; other site 754477005336 YceI-like domain; Region: YceI; cl01001 754477005337 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 754477005338 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 754477005339 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 754477005340 TrkA-N domain; Region: TrkA_N; pfam02254 754477005341 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 754477005342 HemY protein N-terminus; Region: HemY_N; pfam07219 754477005343 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 754477005344 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 754477005345 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 754477005346 active site 754477005347 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 754477005348 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 754477005349 domain interfaces; other site 754477005350 active site 754477005351 argininosuccinate lyase; Provisional; Region: PRK00855 754477005352 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 754477005353 active sites [active] 754477005354 tetramer interface [polypeptide binding]; other site 754477005355 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 754477005356 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477005357 N-terminal plug; other site 754477005358 ligand-binding site [chemical binding]; other site 754477005359 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 754477005360 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 754477005361 haemagglutination activity domain; Region: Haemagg_act; pfam05860 754477005362 The GLUG motif; Region: Glug; pfam07581 754477005363 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 754477005364 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 754477005365 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 754477005366 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 754477005367 DNA binding residues [nucleotide binding] 754477005368 dimer interface [polypeptide binding]; other site 754477005369 metal binding site [ion binding]; metal-binding site 754477005370 Predicted permeases [General function prediction only]; Region: COG0701 754477005371 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 754477005372 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477005373 N-terminal plug; other site 754477005374 ligand-binding site [chemical binding]; other site 754477005375 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 754477005376 putative metal binding site [ion binding]; other site 754477005377 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 754477005378 active site 754477005379 phosphorylation site [posttranslational modification] 754477005380 intermolecular recognition site; other site 754477005381 dimerization interface [polypeptide binding]; other site 754477005382 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 754477005383 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 754477005384 DNA binding residues [nucleotide binding] 754477005385 dimerization interface [polypeptide binding]; other site 754477005386 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 754477005387 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 754477005388 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 754477005389 dimer interface [polypeptide binding]; other site 754477005390 phosphorylation site [posttranslational modification] 754477005391 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 754477005392 ATP binding site [chemical binding]; other site 754477005393 Mg2+ binding site [ion binding]; other site 754477005394 G-X-G motif; other site 754477005395 Response regulator receiver domain; Region: Response_reg; pfam00072 754477005396 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 754477005397 active site 754477005398 phosphorylation site [posttranslational modification] 754477005399 intermolecular recognition site; other site 754477005400 dimerization interface [polypeptide binding]; other site 754477005401 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 754477005402 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 754477005403 UreF; Region: UreF; pfam01730 754477005404 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 754477005405 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 754477005406 dimer interface [polypeptide binding]; other site 754477005407 catalytic residues [active] 754477005408 urease subunit alpha; Reviewed; Region: ureC; PRK13207 754477005409 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 754477005410 subunit interactions [polypeptide binding]; other site 754477005411 active site 754477005412 flap region; other site 754477005413 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 754477005414 gamma-beta subunit interface [polypeptide binding]; other site 754477005415 alpha-beta subunit interface [polypeptide binding]; other site 754477005416 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 754477005417 alpha-gamma subunit interface [polypeptide binding]; other site 754477005418 beta-gamma subunit interface [polypeptide binding]; other site 754477005419 UreD urease accessory protein; Region: UreD; pfam01774 754477005420 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 754477005421 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 754477005422 Walker A/P-loop; other site 754477005423 ATP binding site [chemical binding]; other site 754477005424 Q-loop/lid; other site 754477005425 ABC transporter signature motif; other site 754477005426 Walker B; other site 754477005427 D-loop; other site 754477005428 H-loop/switch region; other site 754477005429 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 754477005430 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 754477005431 Walker A/P-loop; other site 754477005432 ATP binding site [chemical binding]; other site 754477005433 Q-loop/lid; other site 754477005434 ABC transporter signature motif; other site 754477005435 Walker B; other site 754477005436 D-loop; other site 754477005437 H-loop/switch region; other site 754477005438 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 754477005439 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 754477005440 TM-ABC transporter signature motif; other site 754477005441 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 754477005442 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 754477005443 TM-ABC transporter signature motif; other site 754477005444 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 754477005445 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 754477005446 putative ligand binding site [chemical binding]; other site 754477005447 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 754477005448 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 754477005449 putative acetyltransferase; Provisional; Region: PRK03624 754477005450 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 754477005451 Coenzyme A binding pocket [chemical binding]; other site 754477005452 Peptidase_C39 like family; Region: DUF3335; pfam11814 754477005453 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 754477005454 active site 754477005455 Zn binding site [ion binding]; other site 754477005456 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 754477005457 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 754477005458 ATP-grasp domain; Region: ATP-grasp_4; cl17255 754477005459 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 754477005460 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 754477005461 ABC-ATPase subunit interface; other site 754477005462 dimer interface [polypeptide binding]; other site 754477005463 putative PBP binding regions; other site 754477005464 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 754477005465 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 754477005466 intersubunit interface [polypeptide binding]; other site 754477005467 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 754477005468 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 754477005469 Walker A/P-loop; other site 754477005470 ATP binding site [chemical binding]; other site 754477005471 Q-loop/lid; other site 754477005472 ABC transporter signature motif; other site 754477005473 Walker B; other site 754477005474 D-loop; other site 754477005475 H-loop/switch region; other site 754477005476 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 754477005477 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477005478 N-terminal plug; other site 754477005479 ligand-binding site [chemical binding]; other site 754477005480 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 754477005481 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477005482 N-terminal plug; other site 754477005483 ligand-binding site [chemical binding]; other site 754477005484 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 754477005485 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 754477005486 HSP70 interaction site [polypeptide binding]; other site 754477005487 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 754477005488 substrate binding site [polypeptide binding]; other site 754477005489 dimer interface [polypeptide binding]; other site 754477005490 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 754477005491 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 754477005492 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 754477005493 protein binding site [polypeptide binding]; other site 754477005494 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 754477005495 protein binding site [polypeptide binding]; other site 754477005496 glutamate dehydrogenase; Provisional; Region: PRK09414 754477005497 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 754477005498 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 754477005499 NAD(P) binding pocket [chemical binding]; other site 754477005500 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 754477005501 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 754477005502 heme binding site [chemical binding]; other site 754477005503 ferroxidase pore; other site 754477005504 ferroxidase diiron center [ion binding]; other site 754477005505 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 754477005506 dimerization interface [polypeptide binding]; other site 754477005507 putative DNA binding site [nucleotide binding]; other site 754477005508 putative Zn2+ binding site [ion binding]; other site 754477005509 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 754477005510 Cupin domain; Region: Cupin_2; pfam07883 754477005511 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 754477005512 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 754477005513 Substrate binding site; other site 754477005514 Mg++ binding site; other site 754477005515 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 754477005516 active site 754477005517 substrate binding site [chemical binding]; other site 754477005518 CoA binding site [chemical binding]; other site 754477005519 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 754477005520 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 754477005521 gamma subunit interface [polypeptide binding]; other site 754477005522 epsilon subunit interface [polypeptide binding]; other site 754477005523 LBP interface [polypeptide binding]; other site 754477005524 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 754477005525 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 754477005526 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 754477005527 alpha subunit interaction interface [polypeptide binding]; other site 754477005528 Walker A motif; other site 754477005529 ATP binding site [chemical binding]; other site 754477005530 Walker B motif; other site 754477005531 inhibitor binding site; inhibition site 754477005532 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 754477005533 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 754477005534 core domain interface [polypeptide binding]; other site 754477005535 delta subunit interface [polypeptide binding]; other site 754477005536 epsilon subunit interface [polypeptide binding]; other site 754477005537 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 754477005538 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 754477005539 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 754477005540 beta subunit interaction interface [polypeptide binding]; other site 754477005541 Walker A motif; other site 754477005542 ATP binding site [chemical binding]; other site 754477005543 Walker B motif; other site 754477005544 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 754477005545 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 754477005546 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 754477005547 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 754477005548 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 754477005549 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 754477005550 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 754477005551 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 754477005552 ATP synthase I chain; Region: ATP_synt_I; pfam03899 754477005553 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 754477005554 ParB-like nuclease domain; Region: ParB; smart00470 754477005555 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 754477005556 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 754477005557 P-loop; other site 754477005558 Magnesium ion binding site [ion binding]; other site 754477005559 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 754477005560 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 754477005561 S-adenosylmethionine binding site [chemical binding]; other site 754477005562 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 754477005563 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 754477005564 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 754477005565 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 754477005566 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 754477005567 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 754477005568 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 754477005569 Nitrogen regulatory protein P-II; Region: P-II; smart00938 754477005570 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 754477005571 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 754477005572 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 754477005573 substrate binding site [chemical binding]; other site 754477005574 active site 754477005575 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 754477005576 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 754477005577 ATP-grasp domain; Region: ATP-grasp; pfam02222 754477005578 Rdx family; Region: Rdx; cl01407 754477005579 DNA topoisomerase I; Validated; Region: PRK06599 754477005580 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 754477005581 active site 754477005582 interdomain interaction site; other site 754477005583 putative metal-binding site [ion binding]; other site 754477005584 nucleotide binding site [chemical binding]; other site 754477005585 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 754477005586 domain I; other site 754477005587 DNA binding groove [nucleotide binding] 754477005588 phosphate binding site [ion binding]; other site 754477005589 domain II; other site 754477005590 domain III; other site 754477005591 nucleotide binding site [chemical binding]; other site 754477005592 catalytic site [active] 754477005593 domain IV; other site 754477005594 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 754477005595 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 754477005596 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 754477005597 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 754477005598 Protein of unknown function (DUF494); Region: DUF494; pfam04361 754477005599 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 754477005600 DNA protecting protein DprA; Region: dprA; TIGR00732 754477005601 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 754477005602 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 754477005603 active site 754477005604 catalytic residues [active] 754477005605 metal binding site [ion binding]; metal-binding site 754477005606 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 754477005607 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 754477005608 putative active site [active] 754477005609 substrate binding site [chemical binding]; other site 754477005610 putative cosubstrate binding site; other site 754477005611 catalytic site [active] 754477005612 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 754477005613 substrate binding site [chemical binding]; other site 754477005614 16S rRNA methyltransferase B; Provisional; Region: PRK10901 754477005615 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 754477005616 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 754477005617 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 754477005618 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 754477005619 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 754477005620 dimerization interface [polypeptide binding]; other site 754477005621 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 754477005622 dimer interface [polypeptide binding]; other site 754477005623 phosphorylation site [posttranslational modification] 754477005624 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 754477005625 ATP binding site [chemical binding]; other site 754477005626 Mg2+ binding site [ion binding]; other site 754477005627 G-X-G motif; other site 754477005628 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 754477005629 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 754477005630 active site 754477005631 phosphorylation site [posttranslational modification] 754477005632 intermolecular recognition site; other site 754477005633 dimerization interface [polypeptide binding]; other site 754477005634 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 754477005635 Walker A motif; other site 754477005636 ATP binding site [chemical binding]; other site 754477005637 Walker B motif; other site 754477005638 arginine finger; other site 754477005639 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 754477005640 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 754477005641 TrkA-N domain; Region: TrkA_N; pfam02254 754477005642 TrkA-C domain; Region: TrkA_C; pfam02080 754477005643 TrkA-N domain; Region: TrkA_N; pfam02254 754477005644 TrkA-C domain; Region: TrkA_C; pfam02080 754477005645 hypothetical protein; Validated; Region: PRK00228 754477005646 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 754477005647 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 754477005648 active site 754477005649 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 754477005650 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 754477005651 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 754477005652 dihydroorotase; Provisional; Region: PRK07627 754477005653 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 754477005654 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 754477005655 active site 754477005656 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 754477005657 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 754477005658 Domain of unknown function DUF20; Region: UPF0118; pfam01594 754477005659 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 754477005660 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 754477005661 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 754477005662 HlyD family secretion protein; Region: HlyD_3; pfam13437 754477005663 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 754477005664 Protein export membrane protein; Region: SecD_SecF; cl14618 754477005665 MAPEG family; Region: MAPEG; cl09190 754477005666 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 754477005667 AMP binding site [chemical binding]; other site 754477005668 metal binding site [ion binding]; metal-binding site 754477005669 active site 754477005670 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 754477005671 domain_subunit interface; other site 754477005672 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 754477005673 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 754477005674 FTR, proximal lobe; Region: FTR_C; pfam02741 754477005675 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 754477005676 Formylmethanofuran dehydrogenase (FMDH) subunit A; Methanogenic bacteria and archea derive the energy for autotrophic growth from methanogenesis, the reduction of CO2 with molecular hydrogen as the electron donor. FMDH catalyzes the first step in...; Region: FMDH_A; cd01304 754477005677 active site 754477005678 formylmethanofuran dehydrogenase subunit B; Region: one_C_dehyd_B; TIGR03129 754477005679 The MopB_FmdB-FwdB CD contains the molybdenum/tungsten formylmethanofuran dehydrogenases, subunit B (FmdB/FwdB), and other related proteins. Formylmethanofuran dehydrogenase catalyzes the first step in methane formation from CO2 in methanogenic archaea...; Region: MopB_FmdB-FwdB; cd02761 754477005680 putative [4Fe-4S] binding site [ion binding]; other site 754477005681 putative molybdopterin cofactor binding site [chemical binding]; other site 754477005682 Sporulation related domain; Region: SPOR; pfam05036 754477005683 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 754477005684 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 754477005685 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 754477005686 active site 754477005687 HIGH motif; other site 754477005688 nucleotide binding site [chemical binding]; other site 754477005689 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 754477005690 KMSK motif region; other site 754477005691 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 754477005692 tRNA binding surface [nucleotide binding]; other site 754477005693 anticodon binding site; other site 754477005694 primosome assembly protein PriA; Validated; Region: PRK05580 754477005695 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 754477005696 ATP binding site [chemical binding]; other site 754477005697 putative Mg++ binding site [ion binding]; other site 754477005698 helicase superfamily c-terminal domain; Region: HELICc; smart00490 754477005699 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 754477005700 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 754477005701 folate binding site [chemical binding]; other site 754477005702 NADP+ binding site [chemical binding]; other site 754477005703 Phosphate-starvation-inducible E; Region: PsiE; cl01264 754477005704 PAS domain S-box; Region: sensory_box; TIGR00229 754477005705 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 754477005706 putative active site [active] 754477005707 heme pocket [chemical binding]; other site 754477005708 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 754477005709 PAS fold; Region: PAS_3; pfam08447 754477005710 putative active site [active] 754477005711 heme pocket [chemical binding]; other site 754477005712 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477005713 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477005714 metal binding site [ion binding]; metal-binding site 754477005715 active site 754477005716 I-site; other site 754477005717 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 754477005718 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 754477005719 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 754477005720 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 754477005721 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 754477005722 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 754477005723 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 754477005724 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 754477005725 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 754477005726 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 754477005727 nucleotide binding site/active site [active] 754477005728 HIT family signature motif; other site 754477005729 catalytic residue [active] 754477005730 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 754477005731 metal binding site [ion binding]; metal-binding site 754477005732 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 754477005733 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 754477005734 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 754477005735 substrate binding site [chemical binding]; other site 754477005736 glutamase interaction surface [polypeptide binding]; other site 754477005737 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 754477005738 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 754477005739 catalytic residues [active] 754477005740 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 754477005741 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 754477005742 putative active site [active] 754477005743 oxyanion strand; other site 754477005744 catalytic triad [active] 754477005745 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 754477005746 putative active site pocket [active] 754477005747 4-fold oligomerization interface [polypeptide binding]; other site 754477005748 metal binding residues [ion binding]; metal-binding site 754477005749 3-fold/trimer interface [polypeptide binding]; other site 754477005750 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 754477005751 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 754477005752 ligand binding site [chemical binding]; other site 754477005753 flexible hinge region; other site 754477005754 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 754477005755 putative switch regulator; other site 754477005756 non-specific DNA interactions [nucleotide binding]; other site 754477005757 DNA binding site [nucleotide binding] 754477005758 sequence specific DNA binding site [nucleotide binding]; other site 754477005759 putative cAMP binding site [chemical binding]; other site 754477005760 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 754477005761 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 754477005762 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 754477005763 F plasmid transfer operon protein; Region: TraF; pfam13728 754477005764 Transcriptional regulator [Transcription]; Region: LysR; COG0583 754477005765 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 754477005766 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 754477005767 dimerization interface [polypeptide binding]; other site 754477005768 Rubredoxin [Energy production and conversion]; Region: COG1773 754477005769 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 754477005770 iron binding site [ion binding]; other site 754477005771 recombination protein F; Reviewed; Region: recF; PRK00064 754477005772 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477005773 Walker A/P-loop; other site 754477005774 ATP binding site [chemical binding]; other site 754477005775 Q-loop/lid; other site 754477005776 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477005777 ABC transporter signature motif; other site 754477005778 Walker B; other site 754477005779 D-loop; other site 754477005780 H-loop/switch region; other site 754477005781 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 754477005782 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 754477005783 Mg2+ binding site [ion binding]; other site 754477005784 G-X-G motif; other site 754477005785 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 754477005786 anchoring element; other site 754477005787 dimer interface [polypeptide binding]; other site 754477005788 ATP binding site [chemical binding]; other site 754477005789 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 754477005790 active site 754477005791 putative metal-binding site [ion binding]; other site 754477005792 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 754477005793 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 754477005794 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 754477005795 Archaeal flavoproteins [Energy production and conversion]; Region: COG1036 754477005796 Flavoprotein; Region: Flavoprotein; pfam02441 754477005797 dihydropteroate synthase-related protein; Region: TIGR00284 754477005798 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 754477005799 substrate binding pocket [chemical binding]; other site 754477005800 dimer interface [polypeptide binding]; other site 754477005801 inhibitor binding site; inhibition site 754477005802 Domain of unknown function (DUF4346); Region: DUF4346; pfam14251 754477005803 Protein of unknown function (DUF447); Region: DUF447; pfam04289 754477005804 hypothetical protein; Provisional; Region: PRK02227 754477005805 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 754477005806 DNA binding site [nucleotide binding] 754477005807 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 754477005808 active site 754477005809 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 754477005810 DNA binding site [nucleotide binding] 754477005811 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 754477005812 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 754477005813 THF binding site; other site 754477005814 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 754477005815 substrate binding site [chemical binding]; other site 754477005816 THF binding site; other site 754477005817 zinc-binding site [ion binding]; other site 754477005818 Response regulator receiver domain; Region: Response_reg; pfam00072 754477005819 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 754477005820 active site 754477005821 phosphorylation site [posttranslational modification] 754477005822 intermolecular recognition site; other site 754477005823 dimerization interface [polypeptide binding]; other site 754477005824 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 754477005825 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 754477005826 active site 754477005827 phosphorylation site [posttranslational modification] 754477005828 intermolecular recognition site; other site 754477005829 dimerization interface [polypeptide binding]; other site 754477005830 DJ-1 family protein; Region: not_thiJ; TIGR01383 754477005831 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 754477005832 conserved cys residue [active] 754477005833 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 754477005834 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 754477005835 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 754477005836 protein binding site [polypeptide binding]; other site 754477005837 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 754477005838 Catalytic dyad [active] 754477005839 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 754477005840 Peptidase family M23; Region: Peptidase_M23; pfam01551 754477005841 phosphoglyceromutase; Provisional; Region: PRK05434 754477005842 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 754477005843 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 754477005844 active site residue [active] 754477005845 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 754477005846 GSH binding site [chemical binding]; other site 754477005847 catalytic residues [active] 754477005848 preprotein translocase subunit SecB; Validated; Region: PRK05751 754477005849 SecA binding site; other site 754477005850 Preprotein binding site; other site 754477005851 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 754477005852 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 754477005853 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 754477005854 Uncharacterized conserved protein [Function unknown]; Region: COG1565 754477005855 dihydromonapterin reductase; Provisional; Region: PRK06483 754477005856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 754477005857 NAD(P) binding site [chemical binding]; other site 754477005858 active site 754477005859 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 754477005860 homooctamer interface [polypeptide binding]; other site 754477005861 active site 754477005862 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 754477005863 UGMP family protein; Validated; Region: PRK09604 754477005864 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 754477005865 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 754477005866 Yqey-like protein; Region: YqeY; pfam09424 754477005867 DNA primase; Validated; Region: dnaG; PRK05667 754477005868 CHC2 zinc finger; Region: zf-CHC2; pfam01807 754477005869 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 754477005870 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 754477005871 active site 754477005872 metal binding site [ion binding]; metal-binding site 754477005873 interdomain interaction site; other site 754477005874 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 754477005875 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 754477005876 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 754477005877 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 754477005878 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 754477005879 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 754477005880 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 754477005881 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 754477005882 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 754477005883 DNA binding residues [nucleotide binding] 754477005884 FMN reductase; Validated; Region: fre; PRK08051 754477005885 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 754477005886 FAD binding pocket [chemical binding]; other site 754477005887 conserved FAD binding motif [chemical binding]; other site 754477005888 phosphate binding motif [ion binding]; other site 754477005889 beta-alpha-beta structure motif; other site 754477005890 NAD binding pocket [chemical binding]; other site 754477005891 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 754477005892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 754477005893 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 754477005894 putative dimerization interface [polypeptide binding]; other site 754477005895 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 754477005896 methionine synthase; Provisional; Region: PRK01207 754477005897 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 754477005898 substrate binding site [chemical binding]; other site 754477005899 THF binding site; other site 754477005900 zinc-binding site [ion binding]; other site 754477005901 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 754477005902 Hexameric tyrosine-coordinated heme protein (HTHP); Region: HTHP; pfam11534 754477005903 Transcriptional regulators [Transcription]; Region: MarR; COG1846 754477005904 MarR family; Region: MarR; pfam01047 754477005905 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 754477005906 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 754477005907 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 754477005908 Site-specific recombinase; Region: SpecificRecomb; cl15411 754477005909 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 754477005910 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 754477005911 Entericidin EcnA/B family; Region: Entericidin; cl02322 754477005912 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 754477005913 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 754477005914 ligand binding site [chemical binding]; other site 754477005915 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 754477005916 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 754477005917 dimer interface [polypeptide binding]; other site 754477005918 catalytic triad [active] 754477005919 peroxidatic and resolving cysteines [active] 754477005920 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 754477005921 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 754477005922 ligand binding site [chemical binding]; other site 754477005923 flexible hinge region; other site 754477005924 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 754477005925 putative switch regulator; other site 754477005926 non-specific DNA interactions [nucleotide binding]; other site 754477005927 DNA binding site [nucleotide binding] 754477005928 sequence specific DNA binding site [nucleotide binding]; other site 754477005929 putative cAMP binding site [chemical binding]; other site 754477005930 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 754477005931 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 754477005932 Na binding site [ion binding]; other site 754477005933 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 754477005934 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 754477005935 CHASE domain; Region: CHASE; cl01369 754477005936 PAS domain S-box; Region: sensory_box; TIGR00229 754477005937 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 754477005938 PAS domain; Region: PAS_9; pfam13426 754477005939 putative active site [active] 754477005940 heme pocket [chemical binding]; other site 754477005941 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477005942 metal binding site [ion binding]; metal-binding site 754477005943 active site 754477005944 I-site; other site 754477005945 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 754477005946 acetolactate synthase; Reviewed; Region: PRK08322 754477005947 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 754477005948 PYR/PP interface [polypeptide binding]; other site 754477005949 dimer interface [polypeptide binding]; other site 754477005950 TPP binding site [chemical binding]; other site 754477005951 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 754477005952 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 754477005953 TPP-binding site [chemical binding]; other site 754477005954 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 754477005955 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 754477005956 NAD(P) binding site [chemical binding]; other site 754477005957 catalytic residues [active] 754477005958 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 754477005959 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 754477005960 dimerization interface [polypeptide binding]; other site 754477005961 DPS ferroxidase diiron center [ion binding]; other site 754477005962 ion pore; other site 754477005963 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 754477005964 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 754477005965 S-adenosylmethionine binding site [chemical binding]; other site 754477005966 Predicted membrane protein [Function unknown]; Region: COG3212 754477005967 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 754477005968 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 754477005969 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 754477005970 active site 754477005971 phosphorylation site [posttranslational modification] 754477005972 intermolecular recognition site; other site 754477005973 dimerization interface [polypeptide binding]; other site 754477005974 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 754477005975 DNA binding site [nucleotide binding] 754477005976 sensor protein PhoQ; Provisional; Region: PRK10815 754477005977 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 754477005978 ATP binding site [chemical binding]; other site 754477005979 Mg2+ binding site [ion binding]; other site 754477005980 G-X-G motif; other site 754477005981 Predicted membrane protein [Function unknown]; Region: COG3212 754477005982 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 754477005983 Transcriptional regulator; Region: Rrf2; cl17282 754477005984 Rrf2 family protein; Region: rrf2_super; TIGR00738 754477005985 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 754477005986 PAS fold; Region: PAS_3; pfam08447 754477005987 putative active site [active] 754477005988 heme pocket [chemical binding]; other site 754477005989 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 754477005990 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 754477005991 histidine kinase; Provisional; Region: PRK13557 754477005992 putative active site [active] 754477005993 heme pocket [chemical binding]; other site 754477005994 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 754477005995 dimer interface [polypeptide binding]; other site 754477005996 phosphorylation site [posttranslational modification] 754477005997 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 754477005998 ATP binding site [chemical binding]; other site 754477005999 Mg2+ binding site [ion binding]; other site 754477006000 G-X-G motif; other site 754477006001 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 754477006002 active site 754477006003 phosphorylation site [posttranslational modification] 754477006004 intermolecular recognition site; other site 754477006005 dimerization interface [polypeptide binding]; other site 754477006006 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 754477006007 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 754477006008 active site 754477006009 phosphorylation site [posttranslational modification] 754477006010 intermolecular recognition site; other site 754477006011 dimerization interface [polypeptide binding]; other site 754477006012 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 754477006013 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 754477006014 GAF domain; Region: GAF; pfam01590 754477006015 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477006016 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477006017 metal binding site [ion binding]; metal-binding site 754477006018 active site 754477006019 I-site; other site 754477006020 glutathione reductase; Validated; Region: PRK06116 754477006021 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 754477006022 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 754477006023 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 754477006024 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 754477006025 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 754477006026 putative active site [active] 754477006027 catalytic site [active] 754477006028 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 754477006029 putative active site [active] 754477006030 catalytic site [active] 754477006031 Uncharacterized conserved protein [Function unknown]; Region: COG0398 754477006032 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 754477006033 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 754477006034 putative catalytic site [active] 754477006035 putative metal binding site [ion binding]; other site 754477006036 putative phosphate binding site [ion binding]; other site 754477006037 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 754477006038 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 754477006039 active site 754477006040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 754477006041 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 754477006042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 754477006043 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 754477006044 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 754477006045 pyruvate carboxylase subunit B; Validated; Region: PRK09282 754477006046 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 754477006047 active site 754477006048 catalytic residues [active] 754477006049 metal binding site [ion binding]; metal-binding site 754477006050 homodimer binding site [polypeptide binding]; other site 754477006051 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 754477006052 carboxyltransferase (CT) interaction site; other site 754477006053 biotinylation site [posttranslational modification]; other site 754477006054 pyruvate carboxylase subunit A; Validated; Region: PRK07178 754477006055 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 754477006056 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 754477006057 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 754477006058 Transcriptional regulator [Transcription]; Region: LysR; COG0583 754477006059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 754477006060 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 754477006061 putative dimerization interface [polypeptide binding]; other site 754477006062 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 754477006063 Major Facilitator Superfamily; Region: MFS_1; pfam07690 754477006064 putative substrate translocation pore; other site 754477006065 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 754477006066 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 754477006067 active site 754477006068 catalytic tetrad [active] 754477006069 HDOD domain; Region: HDOD; pfam08668 754477006070 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 754477006071 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 754477006072 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 754477006073 Multicopper oxidase; Region: Cu-oxidase; pfam00394 754477006074 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 754477006075 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477006076 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477006077 metal binding site [ion binding]; metal-binding site 754477006078 active site 754477006079 I-site; other site 754477006080 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 754477006081 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 754477006082 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 754477006083 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 754477006084 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 754477006085 active site 754477006086 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 754477006087 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 754477006088 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 754477006089 peptide chain release factor 1; Validated; Region: prfA; PRK00591 754477006090 This domain is found in peptide chain release factors; Region: PCRF; smart00937 754477006091 RF-1 domain; Region: RF-1; pfam00472 754477006092 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 754477006093 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 754477006094 tRNA; other site 754477006095 putative tRNA binding site [nucleotide binding]; other site 754477006096 putative NADP binding site [chemical binding]; other site 754477006097 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 754477006098 Tetratricopeptide repeat; Region: TPR_12; pfam13424 754477006099 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 754477006100 binding surface 754477006101 TPR motif; other site 754477006102 Tetratricopeptide repeat; Region: TPR_12; pfam13424 754477006103 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 754477006104 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 754477006105 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 754477006106 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 754477006107 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 754477006108 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 754477006109 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 754477006110 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 754477006111 active site 754477006112 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 754477006113 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 754477006114 5S rRNA interface [nucleotide binding]; other site 754477006115 CTC domain interface [polypeptide binding]; other site 754477006116 L16 interface [polypeptide binding]; other site 754477006117 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 754477006118 putative active site [active] 754477006119 catalytic residue [active] 754477006120 GTP-binding protein YchF; Reviewed; Region: PRK09601 754477006121 YchF GTPase; Region: YchF; cd01900 754477006122 G1 box; other site 754477006123 GTP/Mg2+ binding site [chemical binding]; other site 754477006124 Switch I region; other site 754477006125 G2 box; other site 754477006126 Switch II region; other site 754477006127 G3 box; other site 754477006128 G4 box; other site 754477006129 G5 box; other site 754477006130 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 754477006131 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 754477006132 dimerization interface [polypeptide binding]; other site 754477006133 substrate binding site [chemical binding]; other site 754477006134 active site 754477006135 calcium binding site [ion binding]; other site 754477006136 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 754477006137 putative DNA binding site [nucleotide binding]; other site 754477006138 putative Zn2+ binding site [ion binding]; other site 754477006139 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 754477006140 active site 754477006141 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 754477006142 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 754477006143 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 754477006144 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 754477006145 putative substrate translocation pore; other site 754477006146 Major Facilitator Superfamily; Region: MFS_1; pfam07690 754477006147 hypothetical protein; Provisional; Region: PRK02237 754477006148 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 754477006149 Mechanosensitive ion channel; Region: MS_channel; pfam00924 754477006150 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 754477006151 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 754477006152 von Willebrand factor type A domain; Region: VWA_2; pfam13519 754477006153 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 754477006154 metal ion-dependent adhesion site (MIDAS); other site 754477006155 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 754477006156 MoxR-like ATPases [General function prediction only]; Region: COG0714 754477006157 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 754477006158 Walker A motif; other site 754477006159 ATP binding site [chemical binding]; other site 754477006160 Walker B motif; other site 754477006161 arginine finger; other site 754477006162 Methanol dehydrogenase beta subunit; Region: MDH; pfam02315 754477006163 cytochrome c(L), periplasmic; Region: cytochrome_MoxG; TIGR03872 754477006164 methanol oxidation system protein MoxJ; Region: ABC_MoxJ; TIGR03870 754477006165 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 754477006166 substrate binding pocket [chemical binding]; other site 754477006167 membrane-bound complex binding site; other site 754477006168 hinge residues; other site 754477006169 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 754477006170 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 754477006171 Trp docking motif [polypeptide binding]; other site 754477006172 dimer interface [polypeptide binding]; other site 754477006173 active site 754477006174 small subunit binding site [polypeptide binding]; other site 754477006175 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 754477006176 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 754477006177 active site 754477006178 phosphorylation site [posttranslational modification] 754477006179 intermolecular recognition site; other site 754477006180 dimerization interface [polypeptide binding]; other site 754477006181 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 754477006182 DNA binding residues [nucleotide binding] 754477006183 dimerization interface [polypeptide binding]; other site 754477006184 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 754477006185 Histidine kinase; Region: HisKA_3; pfam07730 754477006186 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 754477006187 ATP binding site [chemical binding]; other site 754477006188 Mg2+ binding site [ion binding]; other site 754477006189 G-X-G motif; other site 754477006190 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 754477006191 putative hydrophobic ligand binding site [chemical binding]; other site 754477006192 protein interface [polypeptide binding]; other site 754477006193 gate; other site 754477006194 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 754477006195 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 754477006196 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 754477006197 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 754477006198 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 754477006199 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 754477006200 N-acetyl-D-glucosamine binding site [chemical binding]; other site 754477006201 catalytic residue [active] 754477006202 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 754477006203 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 754477006204 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 754477006205 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 754477006206 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 754477006207 Dihydroorotate dehydrogenase (DHOD) class 2. 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 nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 754477006208 quinone interaction residues [chemical binding]; other site 754477006209 active site 754477006210 catalytic residues [active] 754477006211 FMN binding site [chemical binding]; other site 754477006212 substrate binding site [chemical binding]; other site 754477006213 Mechanosensitive ion channel; Region: MS_channel; pfam00924 754477006214 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 754477006215 Methyltransferase domain; Region: Methyltransf_23; pfam13489 754477006216 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 754477006217 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 754477006218 RNA/DNA hybrid binding site [nucleotide binding]; other site 754477006219 active site 754477006220 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 754477006221 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 754477006222 active site 754477006223 catalytic site [active] 754477006224 substrate binding site [chemical binding]; other site 754477006225 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 754477006226 GrpE; Region: GrpE; pfam01025 754477006227 dimer interface [polypeptide binding]; other site 754477006228 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 754477006229 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 754477006230 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 754477006231 nucleotide binding site [chemical binding]; other site 754477006232 chaperone protein DnaJ; Provisional; Region: PRK10767 754477006233 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 754477006234 HSP70 interaction site [polypeptide binding]; other site 754477006235 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 754477006236 substrate binding site [polypeptide binding]; other site 754477006237 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 754477006238 Zn binding sites [ion binding]; other site 754477006239 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 754477006240 dimer interface [polypeptide binding]; other site 754477006241 dihydrodipicolinate reductase; Provisional; Region: PRK00048 754477006242 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 754477006243 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 754477006244 TPR repeat; Region: TPR_11; pfam13414 754477006245 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 754477006246 binding surface 754477006247 TPR motif; other site 754477006248 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 754477006249 Transglycosylase; Region: Transgly; pfam00912 754477006250 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 754477006251 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 754477006252 putative catalytic residue [active] 754477006253 transketolase; Reviewed; Region: PRK12753 754477006254 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 754477006255 TPP-binding site [chemical binding]; other site 754477006256 dimer interface [polypeptide binding]; other site 754477006257 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 754477006258 PYR/PP interface [polypeptide binding]; other site 754477006259 dimer interface [polypeptide binding]; other site 754477006260 TPP binding site [chemical binding]; other site 754477006261 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 754477006262 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 754477006263 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 754477006264 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 754477006265 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 754477006266 Phosphoglycerate kinase; Region: PGK; pfam00162 754477006267 substrate binding site [chemical binding]; other site 754477006268 hinge regions; other site 754477006269 ADP binding site [chemical binding]; other site 754477006270 catalytic site [active] 754477006271 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 754477006272 pyruvate kinase; Provisional; Region: PRK05826 754477006273 domain interfaces; other site 754477006274 active site 754477006275 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 754477006276 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 754477006277 intersubunit interface [polypeptide binding]; other site 754477006278 active site 754477006279 zinc binding site [ion binding]; other site 754477006280 Na+ binding site [ion binding]; other site 754477006281 CrcB-like protein; Region: CRCB; cl09114 754477006282 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 754477006283 seryl-tRNA synthetase; Provisional; Region: PRK05431 754477006284 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 754477006285 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 754477006286 dimer interface [polypeptide binding]; other site 754477006287 active site 754477006288 motif 1; other site 754477006289 motif 2; other site 754477006290 motif 3; other site 754477006291 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 754477006292 Peptidase family M50; Region: Peptidase_M50; pfam02163 754477006293 active site 754477006294 putative substrate binding region [chemical binding]; other site 754477006295 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 754477006296 active site 754477006297 HIGH motif; other site 754477006298 dimer interface [polypeptide binding]; other site 754477006299 KMSKS motif; other site 754477006300 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 754477006301 active site 754477006302 KMSKS motif; other site 754477006303 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 754477006304 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 754477006305 active site 754477006306 HIGH motif; other site 754477006307 dimer interface [polypeptide binding]; other site 754477006308 KMSKS motif; other site 754477006309 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 754477006310 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 754477006311 RNA binding surface [nucleotide binding]; other site 754477006312 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 754477006313 probable active site [active] 754477006314 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477006315 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477006316 metal binding site [ion binding]; metal-binding site 754477006317 active site 754477006318 I-site; other site 754477006319 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 754477006320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 754477006321 NAD(P) binding site [chemical binding]; other site 754477006322 active site 754477006323 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 754477006324 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 754477006325 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 754477006326 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 754477006327 active site lid residues [active] 754477006328 substrate binding pocket [chemical binding]; other site 754477006329 catalytic residues [active] 754477006330 substrate-Mg2+ binding site; other site 754477006331 aspartate-rich region 1; other site 754477006332 aspartate-rich region 2; other site 754477006333 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 754477006334 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 754477006335 substrate binding pocket [chemical binding]; other site 754477006336 chain length determination region; other site 754477006337 substrate-Mg2+ binding site; other site 754477006338 catalytic residues [active] 754477006339 aspartate-rich region 1; other site 754477006340 active site lid residues [active] 754477006341 aspartate-rich region 2; other site 754477006342 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 754477006343 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 754477006344 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 754477006345 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 754477006346 GTP1/OBG; Region: GTP1_OBG; pfam01018 754477006347 Obg GTPase; Region: Obg; cd01898 754477006348 G1 box; other site 754477006349 GTP/Mg2+ binding site [chemical binding]; other site 754477006350 Switch I region; other site 754477006351 G2 box; other site 754477006352 G3 box; other site 754477006353 Switch II region; other site 754477006354 G4 box; other site 754477006355 G5 box; other site 754477006356 gamma-glutamyl kinase; Provisional; Region: PRK05429 754477006357 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 754477006358 nucleotide binding site [chemical binding]; other site 754477006359 homotetrameric interface [polypeptide binding]; other site 754477006360 putative phosphate binding site [ion binding]; other site 754477006361 putative allosteric binding site; other site 754477006362 PUA domain; Region: PUA; pfam01472 754477006363 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 754477006364 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 754477006365 putative active site [active] 754477006366 putative catalytic site [active] 754477006367 putative DNA binding site [nucleotide binding]; other site 754477006368 putative phosphate binding site [ion binding]; other site 754477006369 metal binding site A [ion binding]; metal-binding site 754477006370 putative AP binding site [nucleotide binding]; other site 754477006371 putative metal binding site B [ion binding]; other site 754477006372 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 754477006373 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 754477006374 ATP binding site [chemical binding]; other site 754477006375 putative Mg++ binding site [ion binding]; other site 754477006376 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 754477006377 nucleotide binding region [chemical binding]; other site 754477006378 ATP-binding site [chemical binding]; other site 754477006379 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 754477006380 HRDC domain; Region: HRDC; pfam00570 754477006381 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 754477006382 active site 754477006383 DNA polymerase IV; Validated; Region: PRK02406 754477006384 DNA binding site [nucleotide binding] 754477006385 muropeptide transporter; Validated; Region: ampG; cl17669 754477006386 muropeptide transporter; Validated; Region: ampG; cl17669 754477006387 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 754477006388 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 754477006389 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 754477006390 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 754477006391 non-specific DNA binding site [nucleotide binding]; other site 754477006392 salt bridge; other site 754477006393 sequence-specific DNA binding site [nucleotide binding]; other site 754477006394 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 754477006395 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 754477006396 dimer interface [polypeptide binding]; other site 754477006397 ssDNA binding site [nucleotide binding]; other site 754477006398 tetramer (dimer of dimers) interface [polypeptide binding]; other site 754477006399 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 754477006400 Major Facilitator Superfamily; Region: MFS_1; pfam07690 754477006401 putative substrate translocation pore; other site 754477006402 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 754477006403 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 754477006404 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 754477006405 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 754477006406 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 754477006407 putative active site [active] 754477006408 putative metal binding residues [ion binding]; other site 754477006409 signature motif; other site 754477006410 putative triphosphate binding site [ion binding]; other site 754477006411 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 754477006412 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 754477006413 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 754477006414 ApbE family; Region: ApbE; pfam02424 754477006415 glutathione synthetase; Provisional; Region: PRK05246 754477006416 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 754477006417 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 754477006418 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 754477006419 dimer interface [polypeptide binding]; other site 754477006420 motif 1; other site 754477006421 active site 754477006422 motif 2; other site 754477006423 motif 3; other site 754477006424 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 754477006425 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 754477006426 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 754477006427 active site 754477006428 motif I; other site 754477006429 motif II; other site 754477006430 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 754477006431 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 754477006432 putative acyl-acceptor binding pocket; other site 754477006433 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 754477006434 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 754477006435 putative active site [active] 754477006436 heme pocket [chemical binding]; other site 754477006437 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477006438 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477006439 metal binding site [ion binding]; metal-binding site 754477006440 active site 754477006441 I-site; other site 754477006442 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 754477006443 heat shock protein HtpX; Provisional; Region: PRK05457 754477006444 ATP-grasp domain; Region: ATP-grasp_4; cl17255 754477006445 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 754477006446 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 754477006447 NAD(P) binding pocket [chemical binding]; other site 754477006448 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 754477006449 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 754477006450 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 754477006451 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 754477006452 NADP binding domain of methylene tetrahydromethanopterin dehydrogenase; Region: NAD_bind_H4MPT_DH; cd01078 754477006453 NADP binding site [chemical binding]; other site 754477006454 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 754477006455 Predicted secreted protein [Function unknown]; Region: COG5501 754477006456 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 754477006457 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 754477006458 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 754477006459 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 754477006460 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 754477006461 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 754477006462 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 754477006463 active site 754477006464 HIGH motif; other site 754477006465 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 754477006466 active site 754477006467 KMSKS motif; other site 754477006468 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 754477006469 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 754477006470 Trp docking motif [polypeptide binding]; other site 754477006471 dimer interface [polypeptide binding]; other site 754477006472 active site 754477006473 small subunit binding site [polypeptide binding]; other site 754477006474 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 754477006475 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 754477006476 substrate binding pocket [chemical binding]; other site 754477006477 membrane-bound complex binding site; other site 754477006478 hinge residues; other site 754477006479 Domain of unknown function DUF302; Region: DUF302; cl01364 754477006480 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 754477006481 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 754477006482 cytochrome b; Provisional; Region: CYTB; MTH00145 754477006483 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 754477006484 Qi binding site; other site 754477006485 intrachain domain interface; other site 754477006486 interchain domain interface [polypeptide binding]; other site 754477006487 heme bH binding site [chemical binding]; other site 754477006488 heme bL binding site [chemical binding]; other site 754477006489 Qo binding site; other site 754477006490 interchain domain interface [polypeptide binding]; other site 754477006491 intrachain domain interface; other site 754477006492 Qi binding site; other site 754477006493 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 754477006494 Qo binding site; other site 754477006495 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 754477006496 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 754477006497 [2Fe-2S] cluster binding site [ion binding]; other site 754477006498 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 754477006499 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 754477006500 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 754477006501 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 754477006502 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 754477006503 dimer interface [polypeptide binding]; other site 754477006504 anticodon binding site; other site 754477006505 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 754477006506 homodimer interface [polypeptide binding]; other site 754477006507 motif 1; other site 754477006508 active site 754477006509 motif 2; other site 754477006510 GAD domain; Region: GAD; pfam02938 754477006511 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 754477006512 motif 3; other site 754477006513 quinolinate synthetase; Provisional; Region: PRK09375 754477006514 Zinc-finger domain; Region: zf-CHCC; cl01821 754477006515 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 754477006516 active site 754477006517 8-oxo-dGMP binding site [chemical binding]; other site 754477006518 nudix motif; other site 754477006519 metal binding site [ion binding]; metal-binding site 754477006520 Domain of unknown function (DUF329); Region: DUF329; pfam03884 754477006521 hypothetical protein; Provisional; Region: PRK05287 754477006522 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 754477006523 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 754477006524 CoA-binding site [chemical binding]; other site 754477006525 ATP-binding [chemical binding]; other site 754477006526 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 754477006527 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 754477006528 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 754477006529 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 754477006530 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 754477006531 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 754477006532 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 754477006533 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 754477006534 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 754477006535 Walker A motif; other site 754477006536 ATP binding site [chemical binding]; other site 754477006537 Walker B motif; other site 754477006538 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 754477006539 diaminopimelate decarboxylase; Region: lysA; TIGR01048 754477006540 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 754477006541 active site 754477006542 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 754477006543 substrate binding site [chemical binding]; other site 754477006544 catalytic residues [active] 754477006545 dimer interface [polypeptide binding]; other site 754477006546 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 754477006547 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 754477006548 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 754477006549 Protein of unknown function, DUF484; Region: DUF484; cl17449 754477006550 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 754477006551 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 754477006552 active site 754477006553 Int/Topo IB signature motif; other site 754477006554 DNA polymerase I; Provisional; Region: PRK05755 754477006555 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 754477006556 active site 754477006557 metal binding site 1 [ion binding]; metal-binding site 754477006558 putative 5' ssDNA interaction site; other site 754477006559 metal binding site 3; metal-binding site 754477006560 metal binding site 2 [ion binding]; metal-binding site 754477006561 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 754477006562 putative DNA binding site [nucleotide binding]; other site 754477006563 putative metal binding site [ion binding]; other site 754477006564 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 754477006565 active site 754477006566 catalytic site [active] 754477006567 substrate binding site [chemical binding]; other site 754477006568 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 754477006569 active site 754477006570 DNA binding site [nucleotide binding] 754477006571 catalytic site [active] 754477006572 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 754477006573 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 754477006574 Homoserine Kinase, type II. Homoserine kinase 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: HomoserineK_II; cd05153 754477006575 putative active site [active] 754477006576 putative substrate binding site [chemical binding]; other site 754477006577 ATP binding site [chemical binding]; other site 754477006578 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 754477006579 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 754477006580 putative active site [active] 754477006581 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 754477006582 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 754477006583 putative ribose interaction site [chemical binding]; other site 754477006584 putative ADP binding site [chemical binding]; other site 754477006585 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 754477006586 active site 754477006587 nucleotide binding site [chemical binding]; other site 754477006588 HIGH motif; other site 754477006589 KMSKS motif; other site 754477006590 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14263 754477006591 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 754477006592 Walker A/P-loop; other site 754477006593 ATP binding site [chemical binding]; other site 754477006594 Q-loop/lid; other site 754477006595 ABC transporter signature motif; other site 754477006596 Walker B; other site 754477006597 D-loop; other site 754477006598 H-loop/switch region; other site 754477006599 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 754477006600 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 754477006601 dimer interface [polypeptide binding]; other site 754477006602 conserved gate region; other site 754477006603 putative PBP binding loops; other site 754477006604 ABC-ATPase subunit interface; other site 754477006605 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 754477006606 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 754477006607 dimer interface [polypeptide binding]; other site 754477006608 conserved gate region; other site 754477006609 putative PBP binding loops; other site 754477006610 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 754477006611 ABC-ATPase subunit interface; other site 754477006612 PBP superfamily domain; Region: PBP_like_2; cl17296 754477006613 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 754477006614 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 754477006615 active site 754477006616 catalytic tetrad [active] 754477006617 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 754477006618 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 754477006619 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 754477006620 dimer interface [polypeptide binding]; other site 754477006621 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 754477006622 active site 754477006623 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 754477006624 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 754477006625 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 754477006626 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 754477006627 active site 754477006628 ATP binding site [chemical binding]; other site 754477006629 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 754477006630 active site 754477006631 substrate binding site [chemical binding]; other site 754477006632 ATP binding site [chemical binding]; other site 754477006633 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 754477006634 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 754477006635 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 754477006636 active site 754477006637 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 754477006638 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 754477006639 putative active site [active] 754477006640 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 754477006641 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 754477006642 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 754477006643 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 754477006644 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 754477006645 active site 754477006646 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 754477006647 RNA methyltransferase, RsmE family; Region: TIGR00046 754477006648 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 754477006649 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 754477006650 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 754477006651 S-adenosylmethionine binding site [chemical binding]; other site 754477006652 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 754477006653 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 754477006654 ATP binding site [chemical binding]; other site 754477006655 substrate interface [chemical binding]; other site 754477006656 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 754477006657 peptidase PmbA; Provisional; Region: PRK11040 754477006658 PilZ domain; Region: PilZ; pfam07238 754477006659 BolA-like protein; Region: BolA; pfam01722 754477006660 YciI-like protein; Reviewed; Region: PRK11370 754477006661 intracellular septation protein A; Reviewed; Region: PRK00259 754477006662 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 754477006663 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 754477006664 active site 754477006665 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 754477006666 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 754477006667 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 754477006668 putative acyl-acceptor binding pocket; other site 754477006669 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 754477006670 PAS domain S-box; Region: sensory_box; TIGR00229 754477006671 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 754477006672 putative active site [active] 754477006673 heme pocket [chemical binding]; other site 754477006674 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477006675 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477006676 metal binding site [ion binding]; metal-binding site 754477006677 active site 754477006678 I-site; other site 754477006679 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 754477006680 short chain dehydrogenase; Provisional; Region: PRK05993 754477006681 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 754477006682 NADP binding site [chemical binding]; other site 754477006683 active site 754477006684 steroid binding site; other site 754477006685 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 754477006686 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 754477006687 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 754477006688 S-adenosylmethionine binding site [chemical binding]; other site 754477006689 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 754477006690 Uncharacterized conserved protein [Function unknown]; Region: COG0327 754477006691 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 754477006692 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 754477006693 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 754477006694 Flavoprotein; Region: Flavoprotein; pfam02441 754477006695 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 754477006696 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 754477006697 trimer interface [polypeptide binding]; other site 754477006698 active site 754477006699 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 754477006700 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 754477006701 active site 754477006702 substrate binding site [chemical binding]; other site 754477006703 metal binding site [ion binding]; metal-binding site 754477006704 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 754477006705 feedback inhibition sensing region; other site 754477006706 homohexameric interface [polypeptide binding]; other site 754477006707 nucleotide binding site [chemical binding]; other site 754477006708 N-acetyl-L-glutamate binding site [chemical binding]; other site 754477006709 division inhibitor protein; Provisional; Region: slmA; PRK09480 754477006710 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 754477006711 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 754477006712 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 754477006713 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 754477006714 Substrate binding site; other site 754477006715 Cupin domain; Region: Cupin_2; cl17218 754477006716 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 754477006717 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 754477006718 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 754477006719 Walker A/P-loop; other site 754477006720 ATP binding site [chemical binding]; other site 754477006721 Q-loop/lid; other site 754477006722 ABC transporter signature motif; other site 754477006723 Walker B; other site 754477006724 D-loop; other site 754477006725 H-loop/switch region; other site 754477006726 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 754477006727 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 754477006728 HlyD family secretion protein; Region: HlyD_3; pfam13437 754477006729 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 754477006730 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 754477006731 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_4; cd03795 754477006732 putative ADP-binding pocket [chemical binding]; other site 754477006733 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 754477006734 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 754477006735 NADP-binding site; other site 754477006736 homotetramer interface [polypeptide binding]; other site 754477006737 substrate binding site [chemical binding]; other site 754477006738 homodimer interface [polypeptide binding]; other site 754477006739 active site 754477006740 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 754477006741 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 754477006742 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 754477006743 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 754477006744 Walker A/P-loop; other site 754477006745 ATP binding site [chemical binding]; other site 754477006746 Q-loop/lid; other site 754477006747 ABC transporter signature motif; other site 754477006748 Walker B; other site 754477006749 D-loop; other site 754477006750 H-loop/switch region; other site 754477006751 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 754477006752 putative carbohydrate binding site [chemical binding]; other site 754477006753 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 754477006754 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 754477006755 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 754477006756 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 754477006757 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 754477006758 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 754477006759 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 754477006760 NADP-binding site; other site 754477006761 homotetramer interface [polypeptide binding]; other site 754477006762 substrate binding site [chemical binding]; other site 754477006763 homodimer interface [polypeptide binding]; other site 754477006764 active site 754477006765 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 754477006766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 754477006767 NAD(P) binding site [chemical binding]; other site 754477006768 active site 754477006769 Methyltransferase domain; Region: Methyltransf_23; pfam13489 754477006770 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 754477006771 S-adenosylmethionine binding site [chemical binding]; other site 754477006772 TPR repeat; Region: TPR_11; pfam13414 754477006773 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 754477006774 binding surface 754477006775 TPR motif; other site 754477006776 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 754477006777 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 754477006778 YceI-like domain; Region: YceI; pfam04264 754477006779 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 754477006780 SapC; Region: SapC; pfam07277 754477006781 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 754477006782 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 754477006783 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 754477006784 active site 754477006785 Calx-beta domain; Region: Calx-beta; cl02522 754477006786 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 754477006787 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 754477006788 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 754477006789 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 754477006790 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 754477006791 metal ion-dependent adhesion site (MIDAS); other site 754477006792 Glycosyltransferase (GlcNAc); Region: GlcNAc; pfam11397 754477006793 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 754477006794 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 754477006795 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 754477006796 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 754477006797 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 754477006798 PilX N-terminal; Region: PilX_N; pfam14341 754477006799 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 754477006800 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 754477006801 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 754477006802 Type II transport protein GspH; Region: GspH; pfam12019 754477006803 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 754477006804 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 754477006805 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 754477006806 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 754477006807 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 754477006808 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 754477006809 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 754477006810 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 754477006811 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 754477006812 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 754477006813 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 754477006814 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 754477006815 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 754477006816 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 754477006817 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 754477006818 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 754477006819 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 754477006820 Flagellar L-ring protein; Region: FlgH; pfam02107 754477006821 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 754477006822 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 754477006823 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 754477006824 Rod binding protein; Region: Rod-binding; cl01626 754477006825 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 754477006826 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 754477006827 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 754477006828 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 754477006829 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 754477006830 flagellin; Validated; Region: PRK08026 754477006831 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 754477006832 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 754477006833 flagellin; Reviewed; Region: PRK08869 754477006834 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 754477006835 Low molecular weight S layer protein N terminal; Region: LMWSLP_N; pfam12211 754477006836 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 754477006837 FlaG protein; Region: FlaG; pfam03646 754477006838 flagellar capping protein; Reviewed; Region: fliD; PRK08032 754477006839 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 754477006840 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 754477006841 flagellar protein FliS; Validated; Region: fliS; PRK05685 754477006842 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 754477006843 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 754477006844 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 754477006845 Walker A motif; other site 754477006846 ATP binding site [chemical binding]; other site 754477006847 Walker B motif; other site 754477006848 arginine finger; other site 754477006849 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 754477006850 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 754477006851 PAS domain; Region: PAS; smart00091 754477006852 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 754477006853 dimer interface [polypeptide binding]; other site 754477006854 phosphorylation site [posttranslational modification] 754477006855 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 754477006856 ATP binding site [chemical binding]; other site 754477006857 G-X-G motif; other site 754477006858 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 754477006859 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 754477006860 active site 754477006861 phosphorylation site [posttranslational modification] 754477006862 intermolecular recognition site; other site 754477006863 dimerization interface [polypeptide binding]; other site 754477006864 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 754477006865 Walker A motif; other site 754477006866 ATP binding site [chemical binding]; other site 754477006867 Walker B motif; other site 754477006868 arginine finger; other site 754477006869 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 754477006870 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 754477006871 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 754477006872 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 754477006873 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 754477006874 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 754477006875 FliG C-terminal domain; Region: FliG_C; pfam01706 754477006876 flagellar assembly protein H; Validated; Region: fliH; PRK05687 754477006877 Flagellar assembly protein FliH; Region: FliH; pfam02108 754477006878 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 754477006879 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 754477006880 Walker A motif/ATP binding site; other site 754477006881 Walker B motif; other site 754477006882 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 754477006883 anti sigma factor interaction site; other site 754477006884 regulatory phosphorylation site [posttranslational modification]; other site 754477006885 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 754477006886 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 754477006887 active site 754477006888 phosphorylation site [posttranslational modification] 754477006889 intermolecular recognition site; other site 754477006890 dimerization interface [polypeptide binding]; other site 754477006891 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 754477006892 putative binding surface; other site 754477006893 active site 754477006894 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 754477006895 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 754477006896 ATP binding site [chemical binding]; other site 754477006897 Mg2+ binding site [ion binding]; other site 754477006898 G-X-G motif; other site 754477006899 CheW-like domain; Region: CheW; pfam01584 754477006900 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 754477006901 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 754477006902 P-loop; other site 754477006903 Magnesium ion binding site [ion binding]; other site 754477006904 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 754477006905 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 754477006906 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 754477006907 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 754477006908 dimer interface [polypeptide binding]; other site 754477006909 putative CheW interface [polypeptide binding]; other site 754477006910 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 754477006911 active site 754477006912 dimer interface [polypeptide binding]; other site 754477006913 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 754477006914 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 754477006915 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 754477006916 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 754477006917 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 754477006918 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 754477006919 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 754477006920 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 754477006921 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 754477006922 Protein export membrane protein; Region: SecD_SecF; pfam02355 754477006923 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 754477006924 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 754477006925 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 754477006926 structural tetrad; other site 754477006927 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 754477006928 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 754477006929 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 754477006930 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 754477006931 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 754477006932 aromatic acid decarboxylase; Validated; Region: PRK05920 754477006933 Flavoprotein; Region: Flavoprotein; pfam02441 754477006934 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 754477006935 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 754477006936 Potassium binding sites [ion binding]; other site 754477006937 Cesium cation binding sites [ion binding]; other site 754477006938 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 754477006939 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 754477006940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 754477006941 SCP-2 sterol transfer family; Region: SCP2; pfam02036 754477006942 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 754477006943 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 754477006944 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 754477006945 S-adenosylmethionine binding site [chemical binding]; other site 754477006946 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 754477006947 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 754477006948 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 754477006949 Walker A motif; other site 754477006950 ATP binding site [chemical binding]; other site 754477006951 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 754477006952 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 754477006953 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 754477006954 active site 754477006955 HslU subunit interaction site [polypeptide binding]; other site 754477006956 elongation factor Tu; Reviewed; Region: PRK00049 754477006957 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 754477006958 G1 box; other site 754477006959 GEF interaction site [polypeptide binding]; other site 754477006960 GTP/Mg2+ binding site [chemical binding]; other site 754477006961 Switch I region; other site 754477006962 G2 box; other site 754477006963 G3 box; other site 754477006964 Switch II region; other site 754477006965 G4 box; other site 754477006966 G5 box; other site 754477006967 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 754477006968 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 754477006969 Antibiotic Binding Site [chemical binding]; other site 754477006970 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 754477006971 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 754477006972 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 754477006973 putative homodimer interface [polypeptide binding]; other site 754477006974 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 754477006975 heterodimer interface [polypeptide binding]; other site 754477006976 homodimer interface [polypeptide binding]; other site 754477006977 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 754477006978 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 754477006979 23S rRNA interface [nucleotide binding]; other site 754477006980 L7/L12 interface [polypeptide binding]; other site 754477006981 putative thiostrepton binding site; other site 754477006982 L25 interface [polypeptide binding]; other site 754477006983 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 754477006984 mRNA/rRNA interface [nucleotide binding]; other site 754477006985 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 754477006986 23S rRNA interface [nucleotide binding]; other site 754477006987 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 754477006988 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 754477006989 peripheral dimer interface [polypeptide binding]; other site 754477006990 core dimer interface [polypeptide binding]; other site 754477006991 L10 interface [polypeptide binding]; other site 754477006992 L11 interface [polypeptide binding]; other site 754477006993 putative EF-Tu interaction site [polypeptide binding]; other site 754477006994 putative EF-G interaction site [polypeptide binding]; other site 754477006995 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 754477006996 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 754477006997 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 754477006998 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 754477006999 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 754477007000 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 754477007001 RPB3 interaction site [polypeptide binding]; other site 754477007002 RPB1 interaction site [polypeptide binding]; other site 754477007003 RPB11 interaction site [polypeptide binding]; other site 754477007004 RPB10 interaction site [polypeptide binding]; other site 754477007005 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 754477007006 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 754477007007 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 754477007008 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 754477007009 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 754477007010 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 754477007011 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 754477007012 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 754477007013 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 754477007014 DNA binding site [nucleotide binding] 754477007015 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 754477007016 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 754477007017 S17 interaction site [polypeptide binding]; other site 754477007018 S8 interaction site; other site 754477007019 16S rRNA interaction site [nucleotide binding]; other site 754477007020 streptomycin interaction site [chemical binding]; other site 754477007021 23S rRNA interaction site [nucleotide binding]; other site 754477007022 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 754477007023 30S ribosomal protein S7; Validated; Region: PRK05302 754477007024 elongation factor G; Reviewed; Region: PRK00007 754477007025 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 754477007026 G1 box; other site 754477007027 putative GEF interaction site [polypeptide binding]; other site 754477007028 GTP/Mg2+ binding site [chemical binding]; other site 754477007029 Switch I region; other site 754477007030 G2 box; other site 754477007031 G3 box; other site 754477007032 Switch II region; other site 754477007033 G4 box; other site 754477007034 G5 box; other site 754477007035 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 754477007036 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 754477007037 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 754477007038 elongation factor Tu; Reviewed; Region: PRK00049 754477007039 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 754477007040 G1 box; other site 754477007041 GEF interaction site [polypeptide binding]; other site 754477007042 GTP/Mg2+ binding site [chemical binding]; other site 754477007043 Switch I region; other site 754477007044 G2 box; other site 754477007045 G3 box; other site 754477007046 Switch II region; other site 754477007047 G4 box; other site 754477007048 G5 box; other site 754477007049 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 754477007050 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 754477007051 Antibiotic Binding Site [chemical binding]; other site 754477007052 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 754477007053 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 754477007054 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 754477007055 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 754477007056 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 754477007057 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 754477007058 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 754477007059 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 754477007060 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 754477007061 putative translocon binding site; other site 754477007062 protein-rRNA interface [nucleotide binding]; other site 754477007063 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 754477007064 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 754477007065 G-X-X-G motif; other site 754477007066 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 754477007067 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 754477007068 23S rRNA interface [nucleotide binding]; other site 754477007069 5S rRNA interface [nucleotide binding]; other site 754477007070 putative antibiotic binding site [chemical binding]; other site 754477007071 L25 interface [polypeptide binding]; other site 754477007072 L27 interface [polypeptide binding]; other site 754477007073 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 754477007074 23S rRNA interface [nucleotide binding]; other site 754477007075 putative translocon interaction site; other site 754477007076 signal recognition particle (SRP54) interaction site; other site 754477007077 L23 interface [polypeptide binding]; other site 754477007078 trigger factor interaction site; other site 754477007079 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 754477007080 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 754477007081 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 754477007082 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 754477007083 RNA binding site [nucleotide binding]; other site 754477007084 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 754477007085 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 754477007086 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 754477007087 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 754477007088 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 754477007089 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 754477007090 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 754477007091 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 754477007092 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 754477007093 5S rRNA interface [nucleotide binding]; other site 754477007094 23S rRNA interface [nucleotide binding]; other site 754477007095 L5 interface [polypeptide binding]; other site 754477007096 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 754477007097 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 754477007098 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 754477007099 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 754477007100 23S rRNA binding site [nucleotide binding]; other site 754477007101 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 754477007102 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 754477007103 SecY translocase; Region: SecY; pfam00344 754477007104 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 754477007105 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 754477007106 30S ribosomal protein S13; Region: bact_S13; TIGR03631 754477007107 30S ribosomal protein S11; Validated; Region: PRK05309 754477007108 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 754477007109 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 754477007110 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 754477007111 RNA binding surface [nucleotide binding]; other site 754477007112 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 754477007113 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 754477007114 alphaNTD homodimer interface [polypeptide binding]; other site 754477007115 alphaNTD - beta interaction site [polypeptide binding]; other site 754477007116 alphaNTD - beta' interaction site [polypeptide binding]; other site 754477007117 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 754477007118 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 754477007119 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 754477007120 transcription termination factor Rho; Provisional; Region: rho; PRK09376 754477007121 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 754477007122 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 754477007123 RNA binding site [nucleotide binding]; other site 754477007124 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 754477007125 multimer interface [polypeptide binding]; other site 754477007126 Walker A motif; other site 754477007127 ATP binding site [chemical binding]; other site 754477007128 Walker B motif; other site 754477007129 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 754477007130 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 754477007131 Walker A motif; other site 754477007132 ATP binding site [chemical binding]; other site 754477007133 adenylate isopentenyltransferase; Region: PLN02165 754477007134 bacterial Hfq-like; Region: Hfq; cd01716 754477007135 hexamer interface [polypeptide binding]; other site 754477007136 Sm1 motif; other site 754477007137 RNA binding site [nucleotide binding]; other site 754477007138 Sm2 motif; other site 754477007139 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 754477007140 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 754477007141 HflX GTPase family; Region: HflX; cd01878 754477007142 G1 box; other site 754477007143 GTP/Mg2+ binding site [chemical binding]; other site 754477007144 Switch I region; other site 754477007145 G2 box; other site 754477007146 G3 box; other site 754477007147 Switch II region; other site 754477007148 G4 box; other site 754477007149 G5 box; other site 754477007150 FtsH protease regulator HflK; Provisional; Region: PRK10930 754477007151 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 754477007152 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 754477007153 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 754477007154 FtsH protease regulator HflC; Provisional; Region: PRK11029 754477007155 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 754477007156 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 754477007157 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 754477007158 dimer interface [polypeptide binding]; other site 754477007159 motif 1; other site 754477007160 active site 754477007161 motif 2; other site 754477007162 motif 3; other site 754477007163 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 754477007164 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 754477007165 GDP-binding site [chemical binding]; other site 754477007166 ACT binding site; other site 754477007167 IMP binding site; other site 754477007168 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 754477007169 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 754477007170 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 754477007171 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 754477007172 dimer interface [polypeptide binding]; other site 754477007173 active site 754477007174 glycine-pyridoxal phosphate binding site [chemical binding]; other site 754477007175 folate binding site [chemical binding]; other site 754477007176 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 754477007177 ATP cone domain; Region: ATP-cone; pfam03477 754477007178 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 754477007179 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 754477007180 catalytic motif [active] 754477007181 Zn binding site [ion binding]; other site 754477007182 RibD C-terminal domain; Region: RibD_C; cl17279 754477007183 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 754477007184 Lumazine binding domain; Region: Lum_binding; pfam00677 754477007185 Lumazine binding domain; Region: Lum_binding; pfam00677 754477007186 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 754477007187 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 754477007188 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 754477007189 dimerization interface [polypeptide binding]; other site 754477007190 active site 754477007191 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 754477007192 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 754477007193 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 754477007194 RNA/DNA hybrid binding site [nucleotide binding]; other site 754477007195 active site 754477007196 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 754477007197 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 754477007198 active site 754477007199 NTP binding site [chemical binding]; other site 754477007200 metal binding triad [ion binding]; metal-binding site 754477007201 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 754477007202 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 754477007203 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 754477007204 catalytic center binding site [active] 754477007205 ATP binding site [chemical binding]; other site 754477007206 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 754477007207 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 754477007208 Substrate-binding site [chemical binding]; other site 754477007209 Substrate specificity [chemical binding]; other site 754477007210 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 754477007211 oligomerization interface [polypeptide binding]; other site 754477007212 active site 754477007213 metal binding site [ion binding]; metal-binding site 754477007214 pantoate--beta-alanine ligase; Region: panC; TIGR00018 754477007215 Pantoate-beta-alanine ligase; Region: PanC; cd00560 754477007216 active site 754477007217 ATP-binding site [chemical binding]; other site 754477007218 pantoate-binding site; other site 754477007219 HXXH motif; other site 754477007220 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 754477007221 tetramerization interface [polypeptide binding]; other site 754477007222 active site 754477007223 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 754477007224 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 754477007225 putative acyl-acceptor binding pocket; other site 754477007226 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 754477007227 hypothetical protein; Provisional; Region: PRK01617 754477007228 SEC-C motif; Region: SEC-C; pfam02810 754477007229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 754477007230 NAD(P) binding site [chemical binding]; other site 754477007231 active site 754477007232 Domain of unknown function DUF21; Region: DUF21; pfam01595 754477007233 FOG: CBS domain [General function prediction only]; Region: COG0517 754477007234 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 754477007235 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 754477007236 catalytic motif [active] 754477007237 Catalytic residue [active] 754477007238 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 754477007239 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 754477007240 N-acetyl-D-glucosamine binding site [chemical binding]; other site 754477007241 catalytic residue [active] 754477007242 Predicted integral membrane protein [Function unknown]; Region: COG5615 754477007243 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 754477007244 Fumarase C-terminus; Region: Fumerase_C; pfam05683 754477007245 prolyl-tRNA synthetase; Provisional; Region: PRK09194 754477007246 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 754477007247 dimer interface [polypeptide binding]; other site 754477007248 motif 1; other site 754477007249 active site 754477007250 motif 2; other site 754477007251 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 754477007252 putative deacylase active site [active] 754477007253 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 754477007254 active site 754477007255 motif 3; other site 754477007256 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 754477007257 anticodon binding site; other site 754477007258 macrophage migration inhibition factor-like protein; Provisional; Region: PTZ00397 754477007259 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 754477007260 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 754477007261 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 754477007262 active site 754477007263 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 754477007264 putative efflux protein, MATE family; Region: matE; TIGR00797 754477007265 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 754477007266 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 754477007267 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 754477007268 dimer interface [polypeptide binding]; other site 754477007269 substrate binding site [chemical binding]; other site 754477007270 metal binding sites [ion binding]; metal-binding site 754477007271 phosphoserine phosphatase SerB; Region: serB; TIGR00338 754477007272 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 754477007273 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 754477007274 motif II; other site 754477007275 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 754477007276 putative GSH binding site [chemical binding]; other site 754477007277 catalytic residues [active] 754477007278 Uncharacterized conserved protein [Function unknown]; Region: COG2127 754477007279 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 754477007280 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 754477007281 Walker A motif; other site 754477007282 ATP binding site [chemical binding]; other site 754477007283 Walker B motif; other site 754477007284 arginine finger; other site 754477007285 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 754477007286 Walker A motif; other site 754477007287 ATP binding site [chemical binding]; other site 754477007288 Walker B motif; other site 754477007289 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 754477007290 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 754477007291 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated; Region: PRK05986 754477007292 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 754477007293 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477007294 N-terminal plug; other site 754477007295 ligand-binding site [chemical binding]; other site 754477007296 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 754477007297 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 754477007298 homodimer interface [polypeptide binding]; other site 754477007299 substrate-cofactor binding pocket; other site 754477007300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477007301 catalytic residue [active] 754477007302 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 754477007303 metal ion-dependent adhesion site (MIDAS); other site 754477007304 TIGR03503 family protein; Region: TIGR03503 754477007305 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 754477007306 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 754477007307 Predicted dehydrogenase [General function prediction only]; Region: COG0579 754477007308 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 754477007309 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 754477007310 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 754477007311 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 754477007312 Catalytic site [active] 754477007313 Nickel-containing superoxide dismutase; Region: Sod_Ni; pfam09055 754477007314 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 754477007315 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477007316 N-terminal plug; other site 754477007317 ligand-binding site [chemical binding]; other site 754477007318 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 754477007319 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 754477007320 dimer interface [polypeptide binding]; other site 754477007321 active site 754477007322 heme binding site [chemical binding]; other site 754477007323 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 754477007324 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 754477007325 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 754477007326 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 754477007327 dimerization interface [polypeptide binding]; other site 754477007328 MerC mercury resistance protein; Region: MerC; pfam03203 754477007329 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 754477007330 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 754477007331 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 754477007332 metal binding site 2 [ion binding]; metal-binding site 754477007333 putative DNA binding helix; other site 754477007334 metal binding site 1 [ion binding]; metal-binding site 754477007335 dimer interface [polypeptide binding]; other site 754477007336 structural Zn2+ binding site [ion binding]; other site 754477007337 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 754477007338 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 754477007339 ABC transporter; Region: ABC_tran; pfam00005 754477007340 Q-loop/lid; other site 754477007341 ABC transporter signature motif; other site 754477007342 Walker B; other site 754477007343 D-loop; other site 754477007344 H-loop/switch region; other site 754477007345 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 754477007346 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 754477007347 FtsX-like permease family; Region: FtsX; pfam02687 754477007348 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 754477007349 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 754477007350 hypothetical protein; Validated; Region: PRK00029 754477007351 Uncharacterized conserved protein [Function unknown]; Region: COG0397 754477007352 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 754477007353 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 754477007354 HIGH motif; other site 754477007355 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 754477007356 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 754477007357 active site 754477007358 KMSKS motif; other site 754477007359 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 754477007360 tRNA binding surface [nucleotide binding]; other site 754477007361 anticodon binding site; other site 754477007362 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 754477007363 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 754477007364 multifunctional aminopeptidase A; Provisional; Region: PRK00913 754477007365 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 754477007366 interface (dimer of trimers) [polypeptide binding]; other site 754477007367 Substrate-binding/catalytic site; other site 754477007368 Zn-binding sites [ion binding]; other site 754477007369 Predicted permeases [General function prediction only]; Region: COG0795 754477007370 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 754477007371 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 754477007372 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 754477007373 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 754477007374 OstA-like protein; Region: OstA; cl00844 754477007375 Organic solvent tolerance protein; Region: OstA_C; pfam04453 754477007376 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 754477007377 SurA N-terminal domain; Region: SurA_N; pfam09312 754477007378 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 754477007379 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 754477007380 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 754477007381 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 754477007382 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 754477007383 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 754477007384 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 754477007385 IHF dimer interface [polypeptide binding]; other site 754477007386 IHF - DNA interface [nucleotide binding]; other site 754477007387 periplasmic folding chaperone; Provisional; Region: PRK10788 754477007388 SurA N-terminal domain; Region: SurA_N_3; cl07813 754477007389 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 754477007390 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 754477007391 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 754477007392 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 754477007393 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 754477007394 NAD binding site [chemical binding]; other site 754477007395 homotetramer interface [polypeptide binding]; other site 754477007396 homodimer interface [polypeptide binding]; other site 754477007397 substrate binding site [chemical binding]; other site 754477007398 active site 754477007399 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_18; cd08505 754477007400 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 754477007401 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 754477007402 flagellar motor protein MotP; Reviewed; Region: PRK06926 754477007403 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 754477007404 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 754477007405 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 754477007406 ligand binding site [chemical binding]; other site 754477007407 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 754477007408 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 754477007409 substrate binding site [chemical binding]; other site 754477007410 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 754477007411 tartrate dehydrogenase; Region: TTC; TIGR02089 754477007412 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 754477007413 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 754477007414 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 754477007415 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 754477007416 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 754477007417 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 754477007418 active site 754477007419 dimerization interface 3.5A [polypeptide binding]; other site 754477007420 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 754477007421 active site 754477007422 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 754477007423 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 754477007424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477007425 catalytic residue [active] 754477007426 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 754477007427 substrate binding site [chemical binding]; other site 754477007428 active site 754477007429 catalytic residues [active] 754477007430 heterodimer interface [polypeptide binding]; other site 754477007431 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 754477007432 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 754477007433 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 754477007434 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 754477007435 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 754477007436 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 754477007437 acyl-activating enzyme (AAE) consensus motif; other site 754477007438 putative AMP binding site [chemical binding]; other site 754477007439 putative active site [active] 754477007440 putative CoA binding site [chemical binding]; other site 754477007441 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 754477007442 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 754477007443 phosphogluconate dehydratase; Validated; Region: PRK09054 754477007444 6-phosphogluconate dehydratase; Region: edd; TIGR01196 754477007445 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 754477007446 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 754477007447 active site 754477007448 intersubunit interface [polypeptide binding]; other site 754477007449 catalytic residue [active] 754477007450 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 754477007451 DNA-binding site [nucleotide binding]; DNA binding site 754477007452 RNA-binding motif; other site 754477007453 Homeodomain-like domain; Region: HTH_23; pfam13384 754477007454 Winged helix-turn helix; Region: HTH_29; pfam13551 754477007455 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 754477007456 malate dehydrogenase; Provisional; Region: PRK13529 754477007457 Malic enzyme, N-terminal domain; Region: malic; pfam00390 754477007458 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 754477007459 NAD(P) binding site [chemical binding]; other site 754477007460 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 754477007461 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 754477007462 peptide binding site [polypeptide binding]; other site 754477007463 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 754477007464 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 754477007465 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 754477007466 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 754477007467 ABC-ATPase subunit interface; other site 754477007468 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 754477007469 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 754477007470 dimer interface [polypeptide binding]; other site 754477007471 conserved gate region; other site 754477007472 putative PBP binding loops; other site 754477007473 ABC-ATPase subunit interface; other site 754477007474 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 754477007475 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 754477007476 Walker A/P-loop; other site 754477007477 ATP binding site [chemical binding]; other site 754477007478 Q-loop/lid; other site 754477007479 ABC transporter signature motif; other site 754477007480 Walker B; other site 754477007481 D-loop; other site 754477007482 H-loop/switch region; other site 754477007483 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 754477007484 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 754477007485 Walker A/P-loop; other site 754477007486 ATP binding site [chemical binding]; other site 754477007487 Q-loop/lid; other site 754477007488 ABC transporter signature motif; other site 754477007489 Walker B; other site 754477007490 D-loop; other site 754477007491 H-loop/switch region; other site 754477007492 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 754477007493 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 754477007494 active site 754477007495 catalytic triad [active] 754477007496 oxyanion hole [active] 754477007497 switch loop; other site 754477007498 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 754477007499 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 754477007500 Walker A/P-loop; other site 754477007501 ATP binding site [chemical binding]; other site 754477007502 Q-loop/lid; other site 754477007503 ABC transporter signature motif; other site 754477007504 Walker B; other site 754477007505 D-loop; other site 754477007506 H-loop/switch region; other site 754477007507 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 754477007508 FtsX-like permease family; Region: FtsX; pfam02687 754477007509 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 754477007510 Transglycosylase; Region: Transgly; cl17702 754477007511 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 754477007512 RNA polymerase sigma factor; Provisional; Region: PRK12528 754477007513 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 754477007514 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 754477007515 Mre11 DNA-binding presumed domain; Region: Mre11_DNA_bind; pfam04152 754477007516 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 754477007517 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 754477007518 PAS domain; Region: PAS_9; pfam13426 754477007519 putative active site [active] 754477007520 heme pocket [chemical binding]; other site 754477007521 PAS fold; Region: PAS_3; pfam08447 754477007522 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 754477007523 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 754477007524 GAF domain; Region: GAF; pfam01590 754477007525 PAS domain S-box; Region: sensory_box; TIGR00229 754477007526 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 754477007527 putative active site [active] 754477007528 heme pocket [chemical binding]; other site 754477007529 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 754477007530 PAS fold; Region: PAS_3; pfam08447 754477007531 putative active site [active] 754477007532 heme pocket [chemical binding]; other site 754477007533 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 754477007534 PAS fold; Region: PAS_3; pfam08447 754477007535 putative active site [active] 754477007536 heme pocket [chemical binding]; other site 754477007537 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 754477007538 dimer interface [polypeptide binding]; other site 754477007539 phosphorylation site [posttranslational modification] 754477007540 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 754477007541 ATP binding site [chemical binding]; other site 754477007542 G-X-G motif; other site 754477007543 Response regulator receiver domain; Region: Response_reg; pfam00072 754477007544 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 754477007545 active site 754477007546 phosphorylation site [posttranslational modification] 754477007547 intermolecular recognition site; other site 754477007548 dimerization interface [polypeptide binding]; other site 754477007549 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 754477007550 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 754477007551 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477007552 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477007553 metal binding site [ion binding]; metal-binding site 754477007554 active site 754477007555 I-site; other site 754477007556 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 754477007557 Outer membrane efflux protein; Region: OEP; pfam02321 754477007558 Outer membrane efflux protein; Region: OEP; pfam02321 754477007559 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 754477007560 carboxyltransferase (CT) interaction site; other site 754477007561 biotinylation site [posttranslational modification]; other site 754477007562 HlyD family secretion protein; Region: HlyD_3; pfam13437 754477007563 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 754477007564 Predicted membrane protein [Function unknown]; Region: COG1971 754477007565 Domain of unknown function DUF; Region: DUF204; pfam02659 754477007566 Domain of unknown function DUF; Region: DUF204; pfam02659 754477007567 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 754477007568 Mechanosensitive ion channel; Region: MS_channel; pfam00924 754477007569 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 754477007570 TrkA-N domain; Region: TrkA_N; pfam02254 754477007571 TrkA-C domain; Region: TrkA_C; pfam02080 754477007572 TrkA-N domain; Region: TrkA_N; pfam02254 754477007573 TrkA-C domain; Region: TrkA_C; pfam02080 754477007574 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 754477007575 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 754477007576 PEGA domain; Region: PEGA; pfam08308 754477007577 Uncharacterized conserved protein [Function unknown]; Region: COG1262 754477007578 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 754477007579 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 754477007580 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 754477007581 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 754477007582 metal ion-dependent adhesion site (MIDAS); other site 754477007583 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 754477007584 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 754477007585 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 754477007586 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 754477007587 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 754477007588 Walker A/P-loop; other site 754477007589 ATP binding site [chemical binding]; other site 754477007590 Q-loop/lid; other site 754477007591 ABC transporter signature motif; other site 754477007592 Walker B; other site 754477007593 D-loop; other site 754477007594 H-loop/switch region; other site 754477007595 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 754477007596 HlyD family secretion protein; Region: HlyD_3; pfam13437 754477007597 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 754477007598 nucleophilic elbow; other site 754477007599 catalytic triad; other site 754477007600 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 754477007601 Cadherin repeat-like domain; Region: CA_like; cl15786 754477007602 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 754477007603 Ca2+ binding site [ion binding]; other site 754477007604 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 754477007605 Cadherin repeat-like domain; Region: CA_like; cl15786 754477007606 Ca2+ binding site [ion binding]; other site 754477007607 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 754477007608 Cadherin repeat-like domain; Region: CA_like; cl15786 754477007609 Ca2+ binding site [ion binding]; other site 754477007610 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 754477007611 Cadherin repeat-like domain; Region: CA_like; cl15786 754477007612 Ca2+ binding site [ion binding]; other site 754477007613 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 754477007614 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 754477007615 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 754477007616 metal binding site [ion binding]; metal-binding site 754477007617 active site 754477007618 I-site; other site 754477007619 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 754477007620 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_6; cd07242 754477007621 putative dimer interface [polypeptide binding]; other site 754477007622 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 754477007623 ligand binding site [chemical binding]; other site 754477007624 Zn binding site [ion binding]; other site 754477007625 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 754477007626 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 754477007627 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 754477007628 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 754477007629 putative substrate translocation pore; other site 754477007630 Nuclease-related domain; Region: NERD; pfam08378 754477007631 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 754477007632 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 754477007633 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 754477007634 N-acetyl-D-glucosamine binding site [chemical binding]; other site 754477007635 catalytic residue [active] 754477007636 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 754477007637 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 754477007638 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 754477007639 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 754477007640 active site 754477007641 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 754477007642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 754477007643 NAD(P) binding site [chemical binding]; other site 754477007644 active site 754477007645 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 754477007646 Predicted integral membrane protein [Function unknown]; Region: COG5616 754477007647 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 754477007648 TPR motif; other site 754477007649 TPR repeat; Region: TPR_11; pfam13414 754477007650 binding surface 754477007651 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 754477007652 binding surface 754477007653 TPR motif; other site 754477007654 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 754477007655 HTH-like domain; Region: HTH_21; pfam13276 754477007656 Integrase core domain; Region: rve; pfam00665 754477007657 Integrase core domain; Region: rve_2; pfam13333 754477007658 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 754477007659 Transposase; Region: HTH_Tnp_1; pfam01527 754477007660 Prokaryotic E2 family B; Region: Prok-E2_B; pfam14461 754477007661 ThiF family; Region: ThiF; pfam00899 754477007662 ATP binding site [chemical binding]; other site 754477007663 substrate interface [chemical binding]; other site 754477007664 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 754477007665 active site 754477007666 NTP binding site [chemical binding]; other site 754477007667 metal binding triad [ion binding]; metal-binding site 754477007668 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 754477007669 dimer interface [polypeptide binding]; other site 754477007670 putative radical transfer pathway; other site 754477007671 diiron center [ion binding]; other site 754477007672 tyrosyl radical; other site 754477007673 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 754477007674 ATP cone domain; Region: ATP-cone; pfam03477 754477007675 ATP cone domain; Region: ATP-cone; pfam03477 754477007676 Class I ribonucleotide reductase; Region: RNR_I; cd01679 754477007677 active site 754477007678 dimer interface [polypeptide binding]; other site 754477007679 catalytic residues [active] 754477007680 effector binding site; other site 754477007681 R2 peptide binding site; other site 754477007682 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 754477007683 dimerization interface [polypeptide binding]; other site 754477007684 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 754477007685 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 754477007686 dimer interface [polypeptide binding]; other site 754477007687 putative CheW interface [polypeptide binding]; other site 754477007688 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 754477007689 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 754477007690 catalytic triad [active] 754477007691 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 754477007692 dihydrodipicolinate synthase; Region: dapA; TIGR00674 754477007693 dimer interface [polypeptide binding]; other site 754477007694 active site 754477007695 catalytic residue [active] 754477007696 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 754477007697 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 754477007698 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 754477007699 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 754477007700 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 754477007701 ATP binding site [chemical binding]; other site 754477007702 active site 754477007703 substrate binding site [chemical binding]; other site 754477007704 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 754477007705 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 754477007706 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 754477007707 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 754477007708 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 754477007709 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 754477007710 dimer interface [polypeptide binding]; other site 754477007711 ADP-ribose binding site [chemical binding]; other site 754477007712 active site 754477007713 nudix motif; other site 754477007714 metal binding site [ion binding]; metal-binding site 754477007715 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 754477007716 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 754477007717 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 754477007718 active site 754477007719 cosubstrate binding site; other site 754477007720 substrate binding site [chemical binding]; other site 754477007721 catalytic site [active] 754477007722 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 754477007723 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 754477007724 dimerization interface [polypeptide binding]; other site 754477007725 putative ATP binding site [chemical binding]; other site 754477007726 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 754477007727 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 754477007728 Domain of unknown function DUF20; Region: UPF0118; pfam01594 754477007729 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 754477007730 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 754477007731 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 754477007732 Walker A motif; other site 754477007733 ATP binding site [chemical binding]; other site 754477007734 Walker B motif; other site 754477007735 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 754477007736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 754477007737 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 754477007738 DHH family; Region: DHH; pfam01368 754477007739 DHHA1 domain; Region: DHHA1; pfam02272 754477007740 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 754477007741 response regulator; Provisional; Region: PRK09483 754477007742 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 754477007743 active site 754477007744 phosphorylation site [posttranslational modification] 754477007745 intermolecular recognition site; other site 754477007746 dimerization interface [polypeptide binding]; other site 754477007747 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 754477007748 DNA binding residues [nucleotide binding] 754477007749 dimerization interface [polypeptide binding]; other site 754477007750 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 754477007751 dimerization interface [polypeptide binding]; other site 754477007752 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 754477007753 Histidine kinase; Region: HisKA_3; pfam07730 754477007754 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 754477007755 ATP binding site [chemical binding]; other site 754477007756 Mg2+ binding site [ion binding]; other site 754477007757 G-X-G motif; other site 754477007758 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 754477007759 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 754477007760 DEAD_2; Region: DEAD_2; pfam06733 754477007761 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 754477007762 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 754477007763 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 754477007764 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 754477007765 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 754477007766 potential catalytic triad [active] 754477007767 conserved cys residue [active] 754477007768 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 754477007769 active site 754477007770 substrate binding pocket [chemical binding]; other site 754477007771 dimer interface [polypeptide binding]; other site 754477007772 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 754477007773 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 754477007774 PYR/PP interface [polypeptide binding]; other site 754477007775 dimer interface [polypeptide binding]; other site 754477007776 TPP binding site [chemical binding]; other site 754477007777 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 754477007778 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 754477007779 TPP-binding site [chemical binding]; other site 754477007780 dimer interface [polypeptide binding]; other site 754477007781 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 754477007782 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 754477007783 putative valine binding site [chemical binding]; other site 754477007784 dimer interface [polypeptide binding]; other site 754477007785 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 754477007786 ketol-acid reductoisomerase; Provisional; Region: PRK05479 754477007787 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 754477007788 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 754477007789 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 754477007790 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 754477007791 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 754477007792 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 754477007793 Coenzyme A binding pocket [chemical binding]; other site 754477007794 superoxide dismutase; Provisional; Region: PRK10543 754477007795 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 754477007796 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 754477007797 acetylornithine aminotransferase; Provisional; Region: PRK02627 754477007798 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 754477007799 inhibitor-cofactor binding pocket; inhibition site 754477007800 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477007801 catalytic residue [active] 754477007802 ornithine carbamoyltransferase; Provisional; Region: PRK00779 754477007803 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 754477007804 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 754477007805 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 754477007806 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 754477007807 Substrate binding site; other site 754477007808 metal-binding site 754477007809 Phosphotransferase enzyme family; Region: APH; pfam01636 754477007810 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 754477007811 Maf-like protein; Region: Maf; pfam02545 754477007812 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 754477007813 active site 754477007814 dimer interface [polypeptide binding]; other site 754477007815 phosphoglucomutase; Region: PLN02307 754477007816 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 754477007817 substrate binding site [chemical binding]; other site 754477007818 dimer interface [polypeptide binding]; other site 754477007819 active site 754477007820 metal binding site [ion binding]; metal-binding site 754477007821 Nuclease-related domain; Region: NERD; pfam08378 754477007822 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 754477007823 trigger factor; Provisional; Region: tig; PRK01490 754477007824 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 754477007825 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 754477007826 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 754477007827 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 754477007828 oligomer interface [polypeptide binding]; other site 754477007829 active site residues [active] 754477007830 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 754477007831 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 754477007832 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 754477007833 Walker A motif; other site 754477007834 ATP binding site [chemical binding]; other site 754477007835 Walker B motif; other site 754477007836 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 754477007837 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 754477007838 Found in ATP-dependent protease La (LON); Region: LON; smart00464 754477007839 Found in ATP-dependent protease La (LON); Region: LON; smart00464 754477007840 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 754477007841 Walker A motif; other site 754477007842 ATP binding site [chemical binding]; other site 754477007843 Walker B motif; other site 754477007844 arginine finger; other site 754477007845 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 754477007846 Sporulation related domain; Region: SPOR; pfam05036 754477007847 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 754477007848 Colicin V production protein; Region: Colicin_V; cl00567 754477007849 amidophosphoribosyltransferase; Provisional; Region: PRK09246 754477007850 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 754477007851 active site 754477007852 tetramer interface [polypeptide binding]; other site 754477007853 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 754477007854 active site 754477007855 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 754477007856 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 754477007857 putative phosphate acyltransferase; Provisional; Region: PRK05331 754477007858 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 754477007859 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 754477007860 dimer interface [polypeptide binding]; other site 754477007861 active site 754477007862 CoA binding pocket [chemical binding]; other site 754477007863 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 754477007864 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 754477007865 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 754477007866 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 754477007867 NAD(P) binding site [chemical binding]; other site 754477007868 homotetramer interface [polypeptide binding]; other site 754477007869 homodimer interface [polypeptide binding]; other site 754477007870 active site 754477007871 acyl carrier protein; Provisional; Region: acpP; PRK00982 754477007872 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 754477007873 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 754477007874 dimer interface [polypeptide binding]; other site 754477007875 active site 754477007876 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 754477007877 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 754477007878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477007879 catalytic residue [active] 754477007880 YceG-like family; Region: YceG; pfam02618 754477007881 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 754477007882 dimerization interface [polypeptide binding]; other site 754477007883 thymidylate kinase; Validated; Region: tmk; PRK00698 754477007884 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 754477007885 TMP-binding site; other site 754477007886 ATP-binding site [chemical binding]; other site 754477007887 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 754477007888 DNA polymerase III subunit delta'; Validated; Region: PRK08485 754477007889 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 754477007890 PilZ domain; Region: PilZ; cl01260 754477007891 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 754477007892 active site 754477007893 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 754477007894 active site 754477007895 catalytic triad [active] 754477007896 oxyanion hole [active] 754477007897 switch loop; other site 754477007898 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 754477007899 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 754477007900 DNA-binding site [nucleotide binding]; DNA binding site 754477007901 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 754477007902 pyridoxal 5'-phosphate binding site [chemical binding]; other site 754477007903 homodimer interface [polypeptide binding]; other site 754477007904 catalytic residue [active] 754477007905 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 754477007906 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 754477007907 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 754477007908 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 754477007909 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 754477007910 putative substrate translocation pore; other site 754477007911 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 754477007912 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 754477007913 NADP binding site [chemical binding]; other site 754477007914 dimer interface [polypeptide binding]; other site 754477007915 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 754477007916 dimerization interface [polypeptide binding]; other site 754477007917 active site 754477007918 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 754477007919 HsdM N-terminal domain; Region: HsdM_N; pfam12161 754477007920 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 754477007921 S-adenosylmethionine binding site [chemical binding]; other site 754477007922 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 754477007923 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 754477007924 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 754477007925 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 754477007926 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 754477007927 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 754477007928 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 754477007929 ATP binding site [chemical binding]; other site 754477007930 putative Mg++ binding site [ion binding]; other site 754477007931 conjugal transfer protein TrbA; Provisional; Region: PRK13890 754477007932 Antirestriction protein; Region: Antirestrict; pfam03230 754477007933 TrfA protein; Region: TrfA; pfam07042 754477007934 Replication initiator protein A; Region: RPA; cl17860 754477007935 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 754477007936 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 754477007937 dimer interface [polypeptide binding]; other site 754477007938 ssDNA binding site [nucleotide binding]; other site 754477007939 tetramer (dimer of dimers) interface [polypeptide binding]; other site 754477007940 conjugal transfer protein TrbA; Provisional; Region: PRK13890 754477007941 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 754477007942 salt bridge; other site 754477007943 non-specific DNA binding site [nucleotide binding]; other site 754477007944 sequence-specific DNA binding site [nucleotide binding]; other site 754477007945 conjugal transfer ATPase TrbB; Provisional; Region: PRK13894 754477007946 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 754477007947 ATP binding site [chemical binding]; other site 754477007948 Walker A motif; other site 754477007949 hexamer interface [polypeptide binding]; other site 754477007950 Walker B motif; other site 754477007951 conjugal transfer protein TrbC; Provisional; Region: PRK13892 754477007952 conjugal transfer protein TrbD; Provisional; Region: PRK13823 754477007953 conjugal transfer protein TrbE; Provisional; Region: PRK13891 754477007954 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 754477007955 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 754477007956 Walker A motif; other site 754477007957 ATP binding site [chemical binding]; other site 754477007958 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 754477007959 Walker B; other site 754477007960 D-loop; other site 754477007961 H-loop/switch region; other site 754477007962 conjugal transfer protein TrbF; Provisional; Region: PRK13887 754477007963 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 754477007964 VirB7 interaction site; other site 754477007965 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 754477007966 conjugal transfer protein TrbI; Provisional; Region: PRK13881 754477007967 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 754477007968 conjugal transfer protein TrbJ; Provisional; Region: PRK13879 754477007969 entry exclusion lipoprotein TrbK; Region: TrbK_RP4; TIGR04359 754477007970 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 754477007971 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 754477007972 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 754477007973 N-terminal plug; other site 754477007974 ligand-binding site [chemical binding]; other site 754477007975 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 754477007976 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 754477007977 conjugal transfer protein TrbP; Provisional; Region: PRK13882 754477007978 TraX protein; Region: TraX; pfam05857 754477007979 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 754477007980 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 754477007981 catalytic residues [active] 754477007982 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 754477007983 active site 754477007984 catalytic site [active] 754477007985 substrate binding site [chemical binding]; other site 754477007986 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 754477007987 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 754477007988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 754477007989 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 754477007990 active site 754477007991 metal binding site [ion binding]; metal-binding site 754477007992 interdomain interaction site; other site 754477007993 DNA topoisomerase III; Provisional; Region: PRK07726 754477007994 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 754477007995 active site 754477007996 putative interdomain interaction site [polypeptide binding]; other site 754477007997 putative metal-binding site [ion binding]; other site 754477007998 putative nucleotide binding site [chemical binding]; other site 754477007999 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 754477008000 domain I; other site 754477008001 DNA binding groove [nucleotide binding] 754477008002 phosphate binding site [ion binding]; other site 754477008003 domain II; other site 754477008004 domain III; other site 754477008005 nucleotide binding site [chemical binding]; other site 754477008006 catalytic site [active] 754477008007 domain IV; other site 754477008008 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 754477008009 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 754477008010 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 754477008011 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 754477008012 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 754477008013 Walker A motif; other site 754477008014 ATP binding site [chemical binding]; other site 754477008015 Walker B motif; other site 754477008016 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 754477008017 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 754477008018 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 754477008019 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 754477008020 P-loop; other site 754477008021 conjugal transfer protein TraM; Provisional; Region: PRK13895 754477008022 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 754477008023 active site 754477008024 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 754477008025 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 754477008026 ParB-like nuclease domain; Region: ParB; smart00470 754477008027 KorB domain; Region: KorB; pfam08535 754477008028 KorB C-terminal beta-barrel domain; Region: KorB_C; pfam06613 754477008029 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 754477008030 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 754477008031 P-loop; other site 754477008032 Magnesium ion binding site [ion binding]; other site 754477008033 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 754477008034 Magnesium ion binding site [ion binding]; other site 754477008035 conjugal transfer protein TrbA; Provisional; Region: PRK13890 754477008036 Herpes virus protein UL24; Region: Herpes_UL24; cl17308