-- dump date 20140619_055738 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1131462000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1131462000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1131462000003 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 1131462000004 Walker A motif; other site 1131462000005 ATP binding site [chemical binding]; other site 1131462000006 Walker B motif; other site 1131462000007 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 1131462000008 arginine finger; other site 1131462000009 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 1131462000010 DnaA box-binding interface [nucleotide binding]; other site 1131462000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 1131462000012 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 1131462000013 putative DNA binding surface [nucleotide binding]; other site 1131462000014 dimer interface [polypeptide binding]; other site 1131462000015 beta-clamp/clamp loader binding surface; other site 1131462000016 beta-clamp/translesion DNA polymerase binding surface; other site 1131462000017 recombination protein F; Reviewed; Region: recF; PRK00064 1131462000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462000019 Walker A/P-loop; other site 1131462000020 ATP binding site [chemical binding]; other site 1131462000021 Q-loop/lid; other site 1131462000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462000023 ABC transporter signature motif; other site 1131462000024 Walker B; other site 1131462000025 D-loop; other site 1131462000026 H-loop/switch region; other site 1131462000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1131462000028 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 1131462000029 ATP binding site [chemical binding]; other site 1131462000030 Mg2+ binding site [ion binding]; other site 1131462000031 G-X-G motif; other site 1131462000032 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 1131462000033 anchoring element; other site 1131462000034 dimer interface [polypeptide binding]; other site 1131462000035 ATP binding site [chemical binding]; other site 1131462000036 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 1131462000037 active site 1131462000038 putative metal-binding site [ion binding]; other site 1131462000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1131462000040 DNA gyrase subunit A; Validated; Region: PRK05560 1131462000041 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 1131462000042 CAP-like domain; other site 1131462000043 active site 1131462000044 primary dimer interface [polypeptide binding]; other site 1131462000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1131462000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1131462000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1131462000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1131462000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1131462000050 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1131462000051 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1131462000052 active site 1131462000053 multimer interface [polypeptide binding]; other site 1131462000054 imidazole glycerol phosphate synthase subunit hisH; Provisional; Region: hisH; CHL00188 1131462000055 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1131462000056 predicted active site [active] 1131462000057 catalytic triad [active] 1131462000058 seryl-tRNA synthetase; Provisional; Region: PRK05431 1131462000059 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1131462000060 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 1131462000061 dimer interface [polypeptide binding]; other site 1131462000062 active site 1131462000063 motif 1; other site 1131462000064 motif 2; other site 1131462000065 motif 3; other site 1131462000066 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 1131462000067 nucleoside/Zn binding site; other site 1131462000068 dimer interface [polypeptide binding]; other site 1131462000069 catalytic motif [active] 1131462000070 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 1131462000071 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1131462000072 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 1131462000073 Helix-turn-helix domain; Region: HTH_17; cl17695 1131462000074 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1131462000075 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1131462000076 DNA binding residues [nucleotide binding] 1131462000077 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 1131462000078 non-specific DNA binding site [nucleotide binding]; other site 1131462000079 salt bridge; other site 1131462000080 sequence-specific DNA binding site [nucleotide binding]; other site 1131462000081 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1131462000082 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1131462000083 active site 1131462000084 ATP binding site [chemical binding]; other site 1131462000085 substrate binding site [chemical binding]; other site 1131462000086 activation loop (A-loop); other site 1131462000087 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1131462000088 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 1131462000089 P-loop; other site 1131462000090 Magnesium ion binding site [ion binding]; other site 1131462000091 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 1131462000092 Magnesium ion binding site [ion binding]; other site 1131462000093 Chorismate mutase type II; Region: CM_2; cl00693 1131462000094 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1131462000095 ParB-like nuclease domain; Region: ParBc; pfam02195 1131462000096 Ribonuclease P; Region: Ribonuclease_P; cl00457 1131462000097 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 1131462000098 AAA-like domain; Region: AAA_10; pfam12846 1131462000099 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 1131462000100 Maff2 family; Region: Maff2; pfam12750 1131462000101 AAA-like domain; Region: AAA_10; pfam12846 1131462000102 Domain of unknown function DUF87; Region: DUF87; pfam01935 1131462000103 BRO family, N-terminal domain; Region: Bro-N; smart01040 1131462000104 Putative amidase domain; Region: Amidase_6; pfam12671 1131462000105 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1131462000106 Domain of unknown function (DUF4315); Region: DUF4315; pfam14193 1131462000107 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 1131462000108 DNA topoisomerase III; Provisional; Region: PRK07726 1131462000109 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 1131462000110 active site 1131462000111 putative interdomain interaction site [polypeptide binding]; other site 1131462000112 putative metal-binding site [ion binding]; other site 1131462000113 putative nucleotide binding site [chemical binding]; other site 1131462000114 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 1131462000115 domain I; other site 1131462000116 DNA binding groove [nucleotide binding] 1131462000117 phosphate binding site [ion binding]; other site 1131462000118 domain II; other site 1131462000119 domain III; other site 1131462000120 nucleotide binding site [chemical binding]; other site 1131462000121 catalytic site [active] 1131462000122 domain IV; other site 1131462000123 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1131462000124 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1131462000125 MPN+ (JAMM) motif; other site 1131462000126 Zinc-binding site [ion binding]; other site 1131462000127 YodL-like; Region: YodL; pfam14191 1131462000128 Domain of unknown function (DUF4316); Region: DUF4316; pfam14195 1131462000129 Domain of unknown function (DUF4319); Region: DUF4319; pfam14203 1131462000130 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 1131462000131 S-adenosylmethionine binding site [chemical binding]; other site 1131462000132 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1131462000133 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1131462000134 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1131462000135 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 1131462000136 ATP binding site [chemical binding]; other site 1131462000137 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1131462000138 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1131462000139 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1131462000140 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 1131462000141 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1131462000142 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1131462000143 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 1131462000144 ATP binding site [chemical binding]; other site 1131462000145 putative Mg++ binding site [ion binding]; other site 1131462000146 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 1131462000147 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1131462000148 nucleotide binding region [chemical binding]; other site 1131462000149 ATP-binding site [chemical binding]; other site 1131462000150 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462000151 AAA domain; Region: AAA_21; pfam13304 1131462000152 Walker A/P-loop; other site 1131462000153 ATP binding site [chemical binding]; other site 1131462000154 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1131462000155 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 1131462000156 active site 1131462000157 metal binding site [ion binding]; metal-binding site 1131462000158 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1131462000159 Part of AAA domain; Region: AAA_19; pfam13245 1131462000160 Family description; Region: UvrD_C_2; pfam13538 1131462000161 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 1131462000162 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1131462000163 DNA methylase; Region: N6_N4_Mtase; pfam01555 1131462000164 DNA methylase; Region: N6_N4_Mtase; cl17433 1131462000165 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1131462000166 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 1131462000167 ATP binding site [chemical binding]; other site 1131462000168 putative Mg++ binding site [ion binding]; other site 1131462000169 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1131462000170 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1131462000171 G1 box; other site 1131462000172 GTP/Mg2+ binding site [chemical binding]; other site 1131462000173 G2 box; other site 1131462000174 Switch I region; other site 1131462000175 G3 box; other site 1131462000176 Switch II region; other site 1131462000177 G4 box; other site 1131462000178 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1131462000179 G1 box; other site 1131462000180 GTP/Mg2+ binding site [chemical binding]; other site 1131462000181 G2 box; other site 1131462000182 Switch I region; other site 1131462000183 G3 box; other site 1131462000184 Switch II region; other site 1131462000185 G4 box; other site 1131462000186 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1131462000187 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1131462000188 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 1131462000189 motif II; other site 1131462000190 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1131462000191 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1131462000192 catalytic residues [active] 1131462000193 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1131462000194 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1131462000195 Predicted transcriptional regulators [Transcription]; Region: COG1733 1131462000196 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1131462000197 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1131462000198 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1131462000199 catalytic triad [active] 1131462000200 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1131462000201 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1131462000202 Nitroreductase family; Region: Nitroreductase; pfam00881 1131462000203 FMN binding site [chemical binding]; other site 1131462000204 putative transposase OrfB; Reviewed; Region: PHA02517 1131462000205 Integrase core domain; Region: rve; pfam00665 1131462000206 Integrase core domain; Region: rve_3; pfam13683 1131462000207 Transposase; Region: HTH_Tnp_1; cl17663 1131462000208 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 1131462000209 non-specific DNA binding site [nucleotide binding]; other site 1131462000210 salt bridge; other site 1131462000211 sequence-specific DNA binding site [nucleotide binding]; other site 1131462000212 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1131462000213 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1131462000214 catalytic residues [active] 1131462000215 catalytic nucleophile [active] 1131462000216 Recombinase; Region: Recombinase; pfam07508 1131462000217 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1131462000218 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1131462000219 TrkA-N domain; Region: TrkA_N; pfam02254 1131462000220 TrkA-C domain; Region: TrkA_C; pfam02080 1131462000221 Cation transport protein; Region: TrkH; cl17365 1131462000222 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1131462000223 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1131462000224 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1131462000225 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 1131462000226 transmembrane helices; other site 1131462000227 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1131462000228 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 1131462000229 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1131462000230 Coenzyme A binding pocket [chemical binding]; other site 1131462000231 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 1131462000232 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 1131462000233 FeS/SAM binding site; other site 1131462000234 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 1131462000235 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 1131462000236 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 1131462000237 FeS/SAM binding site; other site 1131462000238 Peptidase family U32; Region: Peptidase_U32; cl03113 1131462000239 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1131462000240 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 1131462000241 FeS/SAM binding site; other site 1131462000242 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1131462000243 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 1131462000244 non-specific DNA binding site [nucleotide binding]; other site 1131462000245 salt bridge; other site 1131462000246 sequence-specific DNA binding site [nucleotide binding]; other site 1131462000247 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1131462000248 Transposase; Region: HTH_Tnp_1; cl17663 1131462000249 putative transposase OrfB; Reviewed; Region: PHA02517 1131462000250 HTH-like domain; Region: HTH_21; pfam13276 1131462000251 Integrase core domain; Region: rve; pfam00665 1131462000252 Integrase core domain; Region: rve_3; pfam13683 1131462000253 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1131462000254 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1131462000255 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 1131462000256 Walker A motif; other site 1131462000257 ATP binding site [chemical binding]; other site 1131462000258 Walker B motif; other site 1131462000259 AAA domain; Region: AAA_31; pfam13614 1131462000260 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 1131462000261 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1131462000262 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 1131462000263 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1131462000264 NlpC/P60 family; Region: NLPC_P60; cl17555 1131462000265 AAA-like domain; Region: AAA_10; pfam12846 1131462000266 Domain of unknown function DUF87; Region: DUF87; pfam01935 1131462000267 PrgI family protein; Region: PrgI; pfam12666 1131462000268 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 1131462000269 non-specific DNA binding site [nucleotide binding]; other site 1131462000270 salt bridge; other site 1131462000271 sequence-specific DNA binding site [nucleotide binding]; other site 1131462000272 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 1131462000273 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 1131462000274 Walker A motif; other site 1131462000275 ATP binding site [chemical binding]; other site 1131462000276 Walker B motif; other site 1131462000277 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 1131462000278 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1131462000279 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1131462000280 Protein of unknown function (DUF3849); Region: DUF3849; pfam12960 1131462000281 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1131462000282 AAA domain; Region: AAA_14; pfam13173 1131462000283 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; cl09109 1131462000284 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 1131462000285 putative DNA binding helix; other site 1131462000286 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1131462000287 Toprim-like; Region: Toprim_2; pfam13155 1131462000288 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1131462000289 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1131462000290 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1131462000291 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1131462000292 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1131462000293 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1131462000294 ParB-like nuclease domain; Region: ParB; smart00470 1131462000295 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1131462000296 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 1131462000297 P-loop; other site 1131462000298 Magnesium ion binding site [ion binding]; other site 1131462000299 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 1131462000300 Magnesium ion binding site [ion binding]; other site 1131462000301 Caspase domain; Region: Peptidase_C14; pfam00656 1131462000302 AAA domain; Region: AAA_23; pfam13476 1131462000303 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462000304 AAA domain; Region: AAA_21; pfam13304 1131462000305 Walker A/P-loop; other site 1131462000306 ATP binding site [chemical binding]; other site 1131462000307 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1131462000308 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 1131462000309 P-loop; other site 1131462000310 Magnesium ion binding site [ion binding]; other site 1131462000311 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 1131462000312 Magnesium ion binding site [ion binding]; other site 1131462000313 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1131462000314 ParB-like nuclease domain; Region: ParB; smart00470 1131462000315 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1131462000316 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1131462000317 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1131462000318 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1131462000319 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1131462000320 nucleotide binding region [chemical binding]; other site 1131462000321 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1131462000322 ATP-binding site [chemical binding]; other site 1131462000323 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1131462000324 Toprim-like; Region: Toprim_2; pfam13155 1131462000325 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1131462000326 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1131462000327 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 1131462000328 non-specific DNA binding site [nucleotide binding]; other site 1131462000329 salt bridge; other site 1131462000330 sequence-specific DNA binding site [nucleotide binding]; other site 1131462000331 Helix-turn-helix domain; Region: HTH_38; pfam13936 1131462000332 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1131462000333 Protein of unknown function (DUF3849); Region: DUF3849; pfam12960 1131462000334 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 1131462000335 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1131462000336 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1131462000337 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 1131462000338 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 1131462000339 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 1131462000340 PrgI family protein; Region: PrgI; pfam12666 1131462000341 AAA-like domain; Region: AAA_10; pfam12846 1131462000342 Domain of unknown function DUF87; Region: DUF87; pfam01935 1131462000343 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1131462000344 NlpC/P60 family; Region: NLPC_P60; cl17555 1131462000345 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 1131462000346 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1131462000347 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1131462000348 AAA domain; Region: AAA_31; pfam13614 1131462000349 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 1131462000350 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 1131462000351 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1131462000352 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 1131462000353 Walker A motif; other site 1131462000354 ATP binding site [chemical binding]; other site 1131462000355 Walker B motif; other site 1131462000356 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1131462000357 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1131462000358 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 1131462000359 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 1131462000360 FeS/SAM binding site; other site 1131462000361 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1131462000362 Peptidase family U32; Region: Peptidase_U32; cl03113 1131462000363 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 1131462000364 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1131462000365 FeS/SAM binding site; other site 1131462000366 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462000367 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462000368 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462000369 NlpC/P60 family; Region: NLPC_P60; cl17555 1131462000370 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1131462000371 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1131462000372 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1131462000373 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1131462000374 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 1131462000375 RNA polymerase sigma factor, SigZ family; Region: SigZ; TIGR02959 1131462000376 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1131462000377 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1131462000378 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 1131462000379 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 1131462000380 dimerization interface [polypeptide binding]; other site 1131462000381 putative DNA binding site [nucleotide binding]; other site 1131462000382 putative Zn2+ binding site [ion binding]; other site 1131462000383 tungsten cofactor oxidoreducase radical SAM maturase; Region: W_rSAM_matur; TIGR04317 1131462000384 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 1131462000385 FeS/SAM binding site; other site 1131462000386 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1131462000387 Predicted permease; Region: DUF318; cl17795 1131462000388 Predicted permease; Region: DUF318; cl17795 1131462000389 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 1131462000390 dimerization interface [polypeptide binding]; other site 1131462000391 putative DNA binding site [nucleotide binding]; other site 1131462000392 putative Zn2+ binding site [ion binding]; other site 1131462000393 tungsten cofactor oxidoreducase radical SAM maturase; Region: W_rSAM_matur; TIGR04317 1131462000394 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 1131462000395 FeS/SAM binding site; other site 1131462000396 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1131462000397 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 1131462000398 putative DNA binding site [nucleotide binding]; other site 1131462000399 putative Zn2+ binding site [ion binding]; other site 1131462000400 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1131462000401 arsenical-resistance protein; Region: acr3; TIGR00832 1131462000402 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1131462000403 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1131462000404 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1131462000405 active site 1131462000406 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1131462000407 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1131462000408 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1131462000409 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 1131462000410 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 1131462000411 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1131462000412 P loop; other site 1131462000413 Nucleotide binding site [chemical binding]; other site 1131462000414 DTAP/Switch II; other site 1131462000415 Switch I; other site 1131462000416 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1131462000417 P loop; other site 1131462000418 Nucleotide binding site [chemical binding]; other site 1131462000419 DTAP/Switch II; other site 1131462000420 Switch I; other site 1131462000421 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1131462000422 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 1131462000423 putative DNA binding site [nucleotide binding]; other site 1131462000424 dimerization interface [polypeptide binding]; other site 1131462000425 putative Zn2+ binding site [ion binding]; other site 1131462000426 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 1131462000427 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 1131462000428 Predicted permeases [General function prediction only]; Region: COG0701 1131462000429 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 1131462000430 DNA binding residues [nucleotide binding] 1131462000431 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 1131462000432 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1131462000433 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1131462000434 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462000435 Walker A/P-loop; other site 1131462000436 ATP binding site [chemical binding]; other site 1131462000437 Q-loop/lid; other site 1131462000438 ABC transporter signature motif; other site 1131462000439 Walker B; other site 1131462000440 D-loop; other site 1131462000441 H-loop/switch region; other site 1131462000442 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1131462000443 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 1131462000444 dimer interface [polypeptide binding]; other site 1131462000445 conserved gate region; other site 1131462000446 putative PBP binding loops; other site 1131462000447 ABC-ATPase subunit interface; other site 1131462000448 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1131462000449 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1131462000450 Helix-turn-helix domain; Region: HTH_17; pfam12728 1131462000451 PBP superfamily domain; Region: PBP_like; pfam12727 1131462000452 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1131462000453 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1131462000454 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 1131462000455 dimerization interface [polypeptide binding]; other site 1131462000456 putative DNA binding site [nucleotide binding]; other site 1131462000457 putative Zn2+ binding site [ion binding]; other site 1131462000458 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 1131462000459 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1131462000460 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1131462000461 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1131462000462 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 1131462000463 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1131462000464 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 1131462000465 DGC domain; Region: DGC; pfam08859 1131462000466 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 1131462000467 lipoyl attachment site [posttranslational modification]; other site 1131462000468 DGC domain; Region: DGC; cl01742 1131462000469 DGC domain; Region: DGC; cl01742 1131462000470 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1131462000471 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1131462000472 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1131462000473 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1131462000474 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 1131462000475 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1131462000476 catalytic residues [active] 1131462000477 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1131462000478 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1131462000479 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1131462000480 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 1131462000481 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1131462000482 catalytic residue [active] 1131462000483 Putative Fe-S cluster; Region: FeS; cl17515 1131462000484 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 1131462000485 dimerization interface [polypeptide binding]; other site 1131462000486 putative DNA binding site [nucleotide binding]; other site 1131462000487 putative Zn2+ binding site [ion binding]; other site 1131462000488 DGC domain; Region: DGC; cl01742 1131462000489 DGC domain; Region: DGC; cl01742 1131462000490 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 1131462000491 carboxyltransferase (CT) interaction site; other site 1131462000492 biotinylation site [posttranslational modification]; other site 1131462000493 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1131462000494 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1131462000495 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 1131462000496 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1131462000497 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1131462000498 tungsten cofactor oxidoreducase radical SAM maturase; Region: W_rSAM_matur; TIGR04317 1131462000499 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 1131462000500 FeS/SAM binding site; other site 1131462000501 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1131462000502 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1131462000503 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 1131462000504 putative substrate translocation pore; other site 1131462000505 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1131462000506 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1131462000507 MarR family; Region: MarR; pfam01047 1131462000508 MarR family; Region: MarR_2; cl17246 1131462000509 Predicted permease; Region: DUF318; cl17795 1131462000510 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1131462000511 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1131462000512 DNA binding residues [nucleotide binding] 1131462000513 Helix-turn-helix domain; Region: HTH_17; pfam12728 1131462000514 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 1131462000515 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1131462000516 active site 1131462000517 DNA binding site [nucleotide binding] 1131462000518 Int/Topo IB signature motif; other site 1131462000519 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1131462000520 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 1131462000521 Walker A motif; other site 1131462000522 ATP binding site [chemical binding]; other site 1131462000523 Walker B motif; other site 1131462000524 arginine finger; other site 1131462000525 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 1131462000526 active site 1131462000527 catalytic triad [active] 1131462000528 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462000529 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462000530 metal binding site [ion binding]; metal-binding site 1131462000531 active site 1131462000532 I-site; other site 1131462000533 L-lactate permease; Region: Lactate_perm; cl00701 1131462000534 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1131462000535 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1131462000536 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1131462000537 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 1131462000538 non-specific DNA binding site [nucleotide binding]; other site 1131462000539 salt bridge; other site 1131462000540 sequence-specific DNA binding site [nucleotide binding]; other site 1131462000541 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 1131462000542 non-specific DNA binding site [nucleotide binding]; other site 1131462000543 salt bridge; other site 1131462000544 sequence-specific DNA binding site [nucleotide binding]; other site 1131462000545 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1131462000546 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1131462000547 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1131462000548 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1131462000549 putative active site [active] 1131462000550 putative metal binding site [ion binding]; other site 1131462000551 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 1131462000552 putative metal binding residues [ion binding]; other site 1131462000553 signature motif; other site 1131462000554 dimer interface [polypeptide binding]; other site 1131462000555 active site 1131462000556 polyP binding site; other site 1131462000557 substrate binding site [chemical binding]; other site 1131462000558 acceptor-phosphate pocket; other site 1131462000559 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1131462000560 CotH protein; Region: CotH; pfam08757 1131462000561 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1131462000562 HlyD family secretion protein; Region: HlyD_3; pfam13437 1131462000563 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1131462000564 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1131462000565 Walker A/P-loop; other site 1131462000566 ATP binding site [chemical binding]; other site 1131462000567 Q-loop/lid; other site 1131462000568 ABC transporter signature motif; other site 1131462000569 Walker B; other site 1131462000570 D-loop; other site 1131462000571 H-loop/switch region; other site 1131462000572 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1131462000573 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462000574 Walker A/P-loop; other site 1131462000575 ATP binding site [chemical binding]; other site 1131462000576 Q-loop/lid; other site 1131462000577 ABC transporter signature motif; other site 1131462000578 Walker B; other site 1131462000579 D-loop; other site 1131462000580 H-loop/switch region; other site 1131462000581 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1131462000582 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1131462000583 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1131462000584 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1131462000585 Winged helix-turn helix; Region: HTH_29; pfam13551 1131462000586 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1131462000587 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 1131462000588 Walker A motif; other site 1131462000589 ATP binding site [chemical binding]; other site 1131462000590 Walker B motif; other site 1131462000591 arginine finger; other site 1131462000592 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1131462000593 hypothetical protein; Validated; Region: PRK00153 1131462000594 recombination protein RecR; Reviewed; Region: recR; PRK00076 1131462000595 RecR protein; Region: RecR; pfam02132 1131462000596 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 1131462000597 putative active site [active] 1131462000598 putative metal-binding site [ion binding]; other site 1131462000599 tetramer interface [polypeptide binding]; other site 1131462000600 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 1131462000601 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1131462000602 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1131462000603 dimer interface [polypeptide binding]; other site 1131462000604 PYR/PP interface [polypeptide binding]; other site 1131462000605 TPP binding site [chemical binding]; other site 1131462000606 substrate binding site [chemical binding]; other site 1131462000607 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1131462000608 Domain of unknown function; Region: EKR; smart00890 1131462000609 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1131462000610 4Fe-4S binding domain; Region: Fer4; pfam00037 1131462000611 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1131462000612 TPP-binding site [chemical binding]; other site 1131462000613 dimer interface [polypeptide binding]; other site 1131462000614 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 1131462000615 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1131462000616 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1131462000617 catalytic residue [active] 1131462000618 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1131462000619 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 1131462000620 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 1131462000621 Protein of unknown function (DUF972); Region: DUF972; pfam06156 1131462000622 Predicted methyltransferases [General function prediction only]; Region: COG0313 1131462000623 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1131462000624 putative SAM binding site [chemical binding]; other site 1131462000625 putative homodimer interface [polypeptide binding]; other site 1131462000626 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1131462000627 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1131462000628 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1131462000629 active site 1131462000630 HIGH motif; other site 1131462000631 KMSKS motif; other site 1131462000632 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1131462000633 tRNA binding surface [nucleotide binding]; other site 1131462000634 anticodon binding site; other site 1131462000635 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 1131462000636 dimer interface [polypeptide binding]; other site 1131462000637 putative tRNA-binding site [nucleotide binding]; other site 1131462000638 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1131462000639 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1131462000640 active site 1131462000641 Winged helix-turn helix; Region: HTH_29; pfam13551 1131462000642 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1131462000643 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1131462000644 B12 binding site [chemical binding]; other site 1131462000645 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 1131462000646 Predicted RNA-binding protein; Region: RNA_bind_2; cl00662 1131462000647 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 1131462000648 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1131462000649 catalytic loop [active] 1131462000650 iron binding site [ion binding]; other site 1131462000651 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 1131462000652 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 1131462000653 CODH interaction site; other site 1131462000654 metal cluster binding site [ion binding]; other site 1131462000655 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 1131462000656 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1131462000657 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 1131462000658 substrate binding pocket [chemical binding]; other site 1131462000659 dimer interface [polypeptide binding]; other site 1131462000660 inhibitor binding site; inhibition site 1131462000661 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 1131462000662 Putative Fe-S cluster; Region: FeS; pfam04060 1131462000663 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 1131462000664 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 1131462000665 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 1131462000666 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 1131462000667 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1131462000668 P-loop; other site 1131462000669 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 1131462000670 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 1131462000671 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 1131462000672 ACS interaction site; other site 1131462000673 CODH interaction site; other site 1131462000674 cubane metal cluster (B-cluster) [ion binding]; other site 1131462000675 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 1131462000676 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 1131462000677 active site 1131462000678 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 1131462000679 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1131462000680 substrate binding pocket [chemical binding]; other site 1131462000681 dimer interface [polypeptide binding]; other site 1131462000682 inhibitor binding site; inhibition site 1131462000683 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 1131462000684 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1131462000685 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1131462000686 homodimer interface [polypeptide binding]; other site 1131462000687 NADP binding site [chemical binding]; other site 1131462000688 substrate binding site [chemical binding]; other site 1131462000689 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 1131462000690 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1131462000691 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 1131462000692 Potassium binding sites [ion binding]; other site 1131462000693 Cesium cation binding sites [ion binding]; other site 1131462000694 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1131462000695 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 1131462000696 FAD binding site [chemical binding]; other site 1131462000697 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 1131462000698 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 1131462000699 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1131462000700 catalytic loop [active] 1131462000701 iron binding site [ion binding]; other site 1131462000702 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1131462000703 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1131462000704 DNA-binding site [nucleotide binding]; DNA binding site 1131462000705 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1131462000706 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 1131462000707 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1131462000708 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 1131462000709 glycerol kinase; Provisional; Region: glpK; PRK00047 1131462000710 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1131462000711 N- and C-terminal domain interface [polypeptide binding]; other site 1131462000712 active site 1131462000713 MgATP binding site [chemical binding]; other site 1131462000714 catalytic site [active] 1131462000715 metal binding site [ion binding]; metal-binding site 1131462000716 glycerol binding site [chemical binding]; other site 1131462000717 homotetramer interface [polypeptide binding]; other site 1131462000718 homodimer interface [polypeptide binding]; other site 1131462000719 FBP binding site [chemical binding]; other site 1131462000720 protein IIAGlc interface [polypeptide binding]; other site 1131462000721 Protein of unknown function DUF45; Region: DUF45; pfam01863 1131462000722 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 1131462000723 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1131462000724 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1131462000725 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 1131462000726 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 1131462000727 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 1131462000728 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1131462000729 dimer interface [polypeptide binding]; other site 1131462000730 PYR/PP interface [polypeptide binding]; other site 1131462000731 TPP binding site [chemical binding]; other site 1131462000732 substrate binding site [chemical binding]; other site 1131462000733 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 1131462000734 TPP-binding site; other site 1131462000735 4Fe-4S binding domain; Region: Fer4; pfam00037 1131462000736 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1131462000737 hypothetical protein; Provisional; Region: PRK06851 1131462000738 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 1131462000739 Walker A motif; other site 1131462000740 ATP binding site [chemical binding]; other site 1131462000741 Divergent AAA domain; Region: AAA_4; pfam04326 1131462000742 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1131462000743 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 1131462000744 putative active site [active] 1131462000745 putative metal binding site [ion binding]; other site 1131462000746 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1131462000747 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1131462000748 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1131462000749 YabG peptidase U57; Region: Peptidase_U57; cl05250 1131462000750 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1131462000751 proposed catalytic triad [active] 1131462000752 active site nucleophile [active] 1131462000753 cyanophycin synthetase; Provisional; Region: PRK14016 1131462000754 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1131462000755 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1131462000756 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1131462000757 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1131462000758 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1131462000759 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1131462000760 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1131462000761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1131462000762 DNA-binding site [nucleotide binding]; DNA binding site 1131462000763 FCD domain; Region: FCD; pfam07729 1131462000764 pur operon repressor; Provisional; Region: PRK09213 1131462000765 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1131462000766 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1131462000767 active site 1131462000768 regulatory protein SpoVG; Reviewed; Region: PRK13259 1131462000769 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1131462000770 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1131462000771 Substrate binding site; other site 1131462000772 Mg++ binding site; other site 1131462000773 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 1131462000774 active site 1131462000775 substrate binding site [chemical binding]; other site 1131462000776 CoA binding site [chemical binding]; other site 1131462000777 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1131462000778 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1131462000779 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1131462000780 active site 1131462000781 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 1131462000782 PRC-barrel domain; Region: PRC; pfam05239 1131462000783 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 1131462000784 putative active site [active] 1131462000785 catalytic residue [active] 1131462000786 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1131462000787 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1131462000788 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 1131462000789 ATP binding site [chemical binding]; other site 1131462000790 putative Mg++ binding site [ion binding]; other site 1131462000791 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 1131462000792 nucleotide binding region [chemical binding]; other site 1131462000793 ATP-binding site [chemical binding]; other site 1131462000794 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1131462000795 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1131462000796 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1131462000797 stage V sporulation protein T; Region: spore_V_T; TIGR02851 1131462000798 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1131462000799 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 1131462000800 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1131462000801 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1131462000802 homodimer interface [polypeptide binding]; other site 1131462000803 metal binding site [ion binding]; metal-binding site 1131462000804 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 1131462000805 homodimer interface [polypeptide binding]; other site 1131462000806 active site 1131462000807 putative chemical substrate binding site [chemical binding]; other site 1131462000808 metal binding site [ion binding]; metal-binding site 1131462000809 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 1131462000810 IHF dimer interface [polypeptide binding]; other site 1131462000811 IHF - DNA interface [nucleotide binding]; other site 1131462000812 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 1131462000813 RNA binding surface [nucleotide binding]; other site 1131462000814 YabP family; Region: YabP; cl06766 1131462000815 Winged helix-turn helix; Region: HTH_29; pfam13551 1131462000816 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1131462000817 DNA binding residues [nucleotide binding] 1131462000818 Septum formation initiator; Region: DivIC; pfam04977 1131462000819 stage II sporulation protein E; Region: spore_II_E; TIGR02865 1131462000820 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1131462000821 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1131462000822 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 1131462000823 Ligand Binding Site [chemical binding]; other site 1131462000824 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1131462000825 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1131462000826 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 1131462000827 Walker A motif; other site 1131462000828 ATP binding site [chemical binding]; other site 1131462000829 Walker B motif; other site 1131462000830 arginine finger; other site 1131462000831 Peptidase family M41; Region: Peptidase_M41; pfam01434 1131462000832 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 1131462000833 active site 1131462000834 multimer interface [polypeptide binding]; other site 1131462000835 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 1131462000836 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 1131462000837 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 1131462000838 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 1131462000839 dihydropteroate synthase; Region: DHPS; TIGR01496 1131462000840 substrate binding pocket [chemical binding]; other site 1131462000841 dimer interface [polypeptide binding]; other site 1131462000842 inhibitor binding site; inhibition site 1131462000843 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 1131462000844 homooctamer interface [polypeptide binding]; other site 1131462000845 active site 1131462000846 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 1131462000847 catalytic center binding site [active] 1131462000848 ATP binding site [chemical binding]; other site 1131462000849 Rossmann-like domain; Region: Rossmann-like; pfam10727 1131462000850 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 1131462000851 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1131462000852 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1131462000853 active site 1131462000854 ATP-binding site [chemical binding]; other site 1131462000855 pantoate-binding site; other site 1131462000856 HXXH motif; other site 1131462000857 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1131462000858 tetramerization interface [polypeptide binding]; other site 1131462000859 active site 1131462000860 Quinolinate synthetase A protein; Region: NadA; pfam02445 1131462000861 L-aspartate oxidase; Provisional; Region: PRK06175 1131462000862 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 1131462000863 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1131462000864 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 1131462000865 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 1131462000866 dimerization interface [polypeptide binding]; other site 1131462000867 active site 1131462000868 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1131462000869 nucleotide binding site [chemical binding]; other site 1131462000870 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1131462000871 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 1131462000872 FMN binding site [chemical binding]; other site 1131462000873 active site 1131462000874 catalytic residues [active] 1131462000875 substrate binding site [chemical binding]; other site 1131462000876 Winged helix-turn helix; Region: HTH_29; pfam13551 1131462000877 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1131462000878 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1131462000879 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1131462000880 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1131462000881 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 1131462000882 dimer interface [polypeptide binding]; other site 1131462000883 putative anticodon binding site; other site 1131462000884 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 1131462000885 motif 1; other site 1131462000886 active site 1131462000887 motif 2; other site 1131462000888 motif 3; other site 1131462000889 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1131462000890 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 1131462000891 dimerization interface [polypeptide binding]; other site 1131462000892 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1131462000893 dimer interface [polypeptide binding]; other site 1131462000894 putative CheW interface [polypeptide binding]; other site 1131462000895 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1131462000896 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1131462000897 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1131462000898 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1131462000899 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1131462000900 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1131462000901 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1131462000902 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 1131462000903 ATP binding site [chemical binding]; other site 1131462000904 Walker A motif; other site 1131462000905 hexamer interface [polypeptide binding]; other site 1131462000906 Walker B motif; other site 1131462000907 Response regulator receiver domain; Region: Response_reg; pfam00072 1131462000908 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 1131462000909 active site 1131462000910 phosphorylation site [posttranslational modification] 1131462000911 intermolecular recognition site; other site 1131462000912 dimerization interface [polypeptide binding]; other site 1131462000913 AAA domain; Region: AAA_31; pfam13614 1131462000914 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 1131462000915 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1131462000916 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1131462000917 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1131462000918 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 1131462000919 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1131462000920 TadE-like protein; Region: TadE; pfam07811 1131462000921 Flp/Fap pilin component; Region: Flp_Fap; cl01585 1131462000922 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1131462000923 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1131462000924 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1131462000925 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 1131462000926 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 1131462000927 active site residue [active] 1131462000928 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1131462000929 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 1131462000930 non-specific DNA binding site [nucleotide binding]; other site 1131462000931 salt bridge; other site 1131462000932 sequence-specific DNA binding site [nucleotide binding]; other site 1131462000933 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1131462000934 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1131462000935 hypothetical protein; Provisional; Region: PRK00955 1131462000936 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1131462000937 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 1131462000938 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1131462000939 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 1131462000940 FeS/SAM binding site; other site 1131462000941 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 1131462000942 competence damage-inducible protein A; Provisional; Region: PRK00549 1131462000943 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 1131462000944 putative MPT binding site; other site 1131462000945 Competence-damaged protein; Region: CinA; pfam02464 1131462000946 recombinase A; Provisional; Region: recA; PRK09354 1131462000947 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 1131462000948 hexamer interface [polypeptide binding]; other site 1131462000949 Walker A motif; other site 1131462000950 ATP binding site [chemical binding]; other site 1131462000951 Walker B motif; other site 1131462000952 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1131462000953 phosphodiesterase; Provisional; Region: PRK12704 1131462000954 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462000955 Zn2+ binding site [ion binding]; other site 1131462000956 Mg2+ binding site [ion binding]; other site 1131462000957 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1131462000958 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1131462000959 putative active site [active] 1131462000960 metal binding site [ion binding]; metal-binding site 1131462000961 homodimer binding site [polypeptide binding]; other site 1131462000962 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 1131462000963 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1131462000964 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 1131462000965 active site 1131462000966 dimer interface [polypeptide binding]; other site 1131462000967 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1131462000968 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1131462000969 active site 1131462000970 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1131462000971 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 1131462000972 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 1131462000973 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462000974 homodimer interface [polypeptide binding]; other site 1131462000975 catalytic residue [active] 1131462000976 HDOD domain; Region: HDOD; pfam08668 1131462000977 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1131462000978 PhoU domain; Region: PhoU; pfam01895 1131462000979 PhoU domain; Region: PhoU; pfam01895 1131462000980 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1131462000981 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1131462000982 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1131462000983 Coenzyme A binding pocket [chemical binding]; other site 1131462000984 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1131462000985 RNA/DNA hybrid binding site [nucleotide binding]; other site 1131462000986 active site 1131462000987 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1131462000988 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1131462000989 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 1131462000990 CoA binding domain; Region: CoA_binding; smart00881 1131462000991 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1131462000992 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1131462000993 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1131462000994 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1131462000995 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1131462000996 putative NAD(P) binding site [chemical binding]; other site 1131462000997 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1131462000998 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1131462000999 putative active site [active] 1131462001000 putative NTP binding site [chemical binding]; other site 1131462001001 putative nucleic acid binding site [nucleotide binding]; other site 1131462001002 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1131462001003 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1131462001004 PAS domain S-box; Region: sensory_box; TIGR00229 1131462001005 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 1131462001006 putative active site [active] 1131462001007 heme pocket [chemical binding]; other site 1131462001008 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462001009 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462001010 metal binding site [ion binding]; metal-binding site 1131462001011 active site 1131462001012 I-site; other site 1131462001013 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1131462001014 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462001015 Zn2+ binding site [ion binding]; other site 1131462001016 Mg2+ binding site [ion binding]; other site 1131462001017 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1131462001018 GAF domain; Region: GAF_3; pfam13492 1131462001019 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1131462001020 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 1131462001021 dimer interface [polypeptide binding]; other site 1131462001022 phosphorylation site [posttranslational modification] 1131462001023 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 1131462001024 ATP binding site [chemical binding]; other site 1131462001025 Mg2+ binding site [ion binding]; other site 1131462001026 G-X-G motif; other site 1131462001027 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1131462001028 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 1131462001029 active site 1131462001030 phosphorylation site [posttranslational modification] 1131462001031 intermolecular recognition site; other site 1131462001032 dimerization interface [polypeptide binding]; other site 1131462001033 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 1131462001034 DNA binding site [nucleotide binding] 1131462001035 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1131462001036 K+ potassium transporter; Region: K_trans; cl15781 1131462001037 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 1131462001038 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1131462001039 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1131462001040 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 1131462001041 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 1131462001042 ATP binding site [chemical binding]; other site 1131462001043 putative Mg++ binding site [ion binding]; other site 1131462001044 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 1131462001045 nucleotide binding region [chemical binding]; other site 1131462001046 ATP-binding site [chemical binding]; other site 1131462001047 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 1131462001048 Late competence development protein ComFB; Region: ComFB; pfam10719 1131462001049 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1131462001050 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1131462001051 Walker A/P-loop; other site 1131462001052 ATP binding site [chemical binding]; other site 1131462001053 Q-loop/lid; other site 1131462001054 ABC transporter signature motif; other site 1131462001055 Walker B; other site 1131462001056 D-loop; other site 1131462001057 H-loop/switch region; other site 1131462001058 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1131462001059 NMT1/THI5 like; Region: NMT1; pfam09084 1131462001060 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1131462001061 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 1131462001062 ABC-ATPase subunit interface; other site 1131462001063 putative PBP binding loops; other site 1131462001064 Domain of unknown function DUF77; Region: DUF77; pfam01910 1131462001065 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1131462001066 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 1131462001067 S-adenosylmethionine binding site [chemical binding]; other site 1131462001068 FOG: CBS domain [General function prediction only]; Region: COG0517 1131462001069 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 1131462001070 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1131462001071 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 1131462001072 B12 binding site [chemical binding]; other site 1131462001073 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1131462001074 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1131462001075 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1131462001076 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1131462001077 TadE-like protein; Region: TadE; pfam07811 1131462001078 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1131462001079 TadE-like protein; Region: TadE; pfam07811 1131462001080 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 1131462001081 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1131462001082 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1131462001083 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1131462001084 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1131462001085 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 1131462001086 PRC-barrel domain; Region: PRC; pfam05239 1131462001087 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1131462001088 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1131462001089 minor groove reading motif; other site 1131462001090 helix-hairpin-helix signature motif; other site 1131462001091 substrate binding pocket [chemical binding]; other site 1131462001092 active site 1131462001093 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1131462001094 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1131462001095 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 1131462001096 active site 1131462001097 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1131462001098 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1131462001099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462001100 catalytic residue [active] 1131462001101 acetyl-CoA synthetase; Provisional; Region: PRK00174 1131462001102 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1131462001103 active site 1131462001104 CoA binding site [chemical binding]; other site 1131462001105 acyl-activating enzyme (AAE) consensus motif; other site 1131462001106 AMP binding site [chemical binding]; other site 1131462001107 acetate binding site [chemical binding]; other site 1131462001108 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 1131462001109 putative active site; other site 1131462001110 putative metal binding residues [ion binding]; other site 1131462001111 signature motif; other site 1131462001112 putative triphosphate binding site [ion binding]; other site 1131462001113 oligoendopeptidase F; Region: pepF; TIGR00181 1131462001114 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1131462001115 active site 1131462001116 Zn binding site [ion binding]; other site 1131462001117 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1131462001118 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 1131462001119 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1131462001120 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1131462001121 homotetramer interface [polypeptide binding]; other site 1131462001122 ligand binding site [chemical binding]; other site 1131462001123 catalytic site [active] 1131462001124 NAD binding site [chemical binding]; other site 1131462001125 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1131462001126 Coenzyme A binding pocket [chemical binding]; other site 1131462001127 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1131462001128 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1131462001129 Plant protein of unknown function (DUF641); Region: DUF641; pfam04859 1131462001130 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1131462001131 Peptidase family M23; Region: Peptidase_M23; pfam01551 1131462001132 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1131462001133 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1131462001134 GIY-YIG motif/motif A; other site 1131462001135 active site 1131462001136 catalytic site [active] 1131462001137 putative DNA binding site [nucleotide binding]; other site 1131462001138 metal binding site [ion binding]; metal-binding site 1131462001139 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1131462001140 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 1131462001141 DNA binding site [nucleotide binding] 1131462001142 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1131462001143 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1131462001144 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1131462001145 active site 1131462001146 metal binding site [ion binding]; metal-binding site 1131462001147 homotetramer interface [polypeptide binding]; other site 1131462001148 Predicted metal-binding protein (DUF2103); Region: DUF2103; cl01651 1131462001149 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1131462001150 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462001151 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462001152 metal binding site [ion binding]; metal-binding site 1131462001153 active site 1131462001154 I-site; other site 1131462001155 recombination factor protein RarA; Reviewed; Region: PRK13342 1131462001156 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 1131462001157 Walker A motif; other site 1131462001158 ATP binding site [chemical binding]; other site 1131462001159 Walker B motif; other site 1131462001160 arginine finger; other site 1131462001161 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1131462001162 Rrf2 family protein; Region: rrf2_super; TIGR00738 1131462001163 Transcriptional regulator; Region: Rrf2; cl17282 1131462001164 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1131462001165 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1131462001166 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1131462001167 catalytic residue [active] 1131462001168 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1131462001169 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1131462001170 trimerization site [polypeptide binding]; other site 1131462001171 active site 1131462001172 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1131462001173 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 1131462001174 Ligand Binding Site [chemical binding]; other site 1131462001175 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 1131462001176 PRC-barrel domain; Region: PRC; pfam05239 1131462001177 reverse gyrase; Provisional; Region: PRK14701 1131462001178 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1131462001179 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1131462001180 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1131462001181 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 1131462001182 motif 1; other site 1131462001183 active site 1131462001184 motif 2; other site 1131462001185 motif 3; other site 1131462001186 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1131462001187 DHHA1 domain; Region: DHHA1; pfam02272 1131462001188 hypothetical protein; Provisional; Region: PRK05473 1131462001189 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 1131462001190 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1131462001191 active site 1131462001192 catalytic tetrad [active] 1131462001193 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1131462001194 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1131462001195 Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]; Region: Sms; COG1066 1131462001196 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1131462001197 YceG-like family; Region: YceG; pfam02618 1131462001198 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1131462001199 dimerization interface [polypeptide binding]; other site 1131462001200 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1131462001201 Peptidase family U32; Region: Peptidase_U32; pfam01136 1131462001202 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 1131462001203 sporulation sigma factor SigK; Reviewed; Region: PRK05803 1131462001204 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1131462001205 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 1131462001206 DNA binding residues [nucleotide binding] 1131462001207 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1131462001208 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 1131462001209 active site 1131462001210 motif I; other site 1131462001211 motif II; other site 1131462001212 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1131462001213 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1131462001214 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1131462001215 shikimate binding site; other site 1131462001216 NAD(P) binding site [chemical binding]; other site 1131462001217 shikimate kinase; Reviewed; Region: aroK; PRK00131 1131462001218 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 1131462001219 ADP binding site [chemical binding]; other site 1131462001220 magnesium binding site [ion binding]; other site 1131462001221 putative shikimate binding site; other site 1131462001222 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1131462001223 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1131462001224 active site 1131462001225 dimer interface [polypeptide binding]; other site 1131462001226 metal binding site [ion binding]; metal-binding site 1131462001227 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1131462001228 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1131462001229 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1131462001230 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1131462001231 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 1131462001232 Walker A motif; other site 1131462001233 ATP binding site [chemical binding]; other site 1131462001234 Walker B motif; other site 1131462001235 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1131462001236 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1131462001237 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1131462001238 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1131462001239 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 1131462001240 active site 1131462001241 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1131462001242 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1131462001243 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462001244 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1131462001245 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 1131462001246 trimer interface [polypeptide binding]; other site 1131462001247 active site 1131462001248 dimer interface [polypeptide binding]; other site 1131462001249 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1131462001250 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1131462001251 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 1131462001252 active site 1131462001253 elongation factor P; Validated; Region: PRK00529 1131462001254 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1131462001255 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 1131462001256 RNA binding site [nucleotide binding]; other site 1131462001257 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 1131462001258 RNA binding site [nucleotide binding]; other site 1131462001259 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462001260 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1131462001261 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 1131462001262 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462001263 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462001264 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 1131462001265 active site 1131462001266 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 1131462001267 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 1131462001268 Walker A motif; other site 1131462001269 ATP binding site [chemical binding]; other site 1131462001270 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 1131462001271 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 1131462001272 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 1131462001273 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 1131462001274 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 1131462001275 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 1131462001276 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 1131462001277 Asp23 family; Region: Asp23; pfam03780 1131462001278 Small integral membrane protein (DUF2273); Region: DUF2273; pfam10031 1131462001279 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1131462001280 putative RNA binding site [nucleotide binding]; other site 1131462001281 Metal-dependent proteases with possible chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: QRI7; COG0533 1131462001282 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1131462001283 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1131462001284 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 1131462001285 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 1131462001286 FAD binding pocket [chemical binding]; other site 1131462001287 FAD binding motif [chemical binding]; other site 1131462001288 phosphate binding motif [ion binding]; other site 1131462001289 beta-alpha-beta structure motif; other site 1131462001290 NAD binding pocket [chemical binding]; other site 1131462001291 Iron coordination center [ion binding]; other site 1131462001292 putative oxidoreductase; Provisional; Region: PRK12831 1131462001293 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1131462001294 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 1131462001295 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1131462001296 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1131462001297 Cl binding site [ion binding]; other site 1131462001298 oligomer interface [polypeptide binding]; other site 1131462001299 Uncharacterized protein containing a ferredoxin domain [Function unknown]; Region: COG4739 1131462001300 Uncharacterized protein containing a ferredoxin domain (DUF2148); Region: DUF2148; pfam09918 1131462001301 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1131462001302 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 1131462001303 generic binding surface II; other site 1131462001304 generic binding surface I; other site 1131462001305 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1131462001306 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1131462001307 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1131462001308 substrate binding pocket [chemical binding]; other site 1131462001309 chain length determination region; other site 1131462001310 substrate-Mg2+ binding site; other site 1131462001311 catalytic residues [active] 1131462001312 aspartate-rich region 1; other site 1131462001313 active site lid residues [active] 1131462001314 aspartate-rich region 2; other site 1131462001315 Divergent PAP2 family; Region: DUF212; pfam02681 1131462001316 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1131462001317 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 1131462001318 TPP-binding site; other site 1131462001319 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 1131462001320 PYR/PP interface [polypeptide binding]; other site 1131462001321 dimer interface [polypeptide binding]; other site 1131462001322 TPP binding site [chemical binding]; other site 1131462001323 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1131462001324 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1131462001325 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 1131462001326 RNA binding surface [nucleotide binding]; other site 1131462001327 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 1131462001328 S-adenosylmethionine binding site [chemical binding]; other site 1131462001329 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1131462001330 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 1131462001331 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1131462001332 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 1131462001333 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 1131462001334 Arginine repressor [Transcription]; Region: ArgR; COG1438 1131462001335 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1131462001336 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1131462001337 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1131462001338 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1131462001339 Walker A/P-loop; other site 1131462001340 ATP binding site [chemical binding]; other site 1131462001341 Q-loop/lid; other site 1131462001342 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1131462001343 ABC transporter signature motif; other site 1131462001344 Walker B; other site 1131462001345 D-loop; other site 1131462001346 H-loop/switch region; other site 1131462001347 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1131462001348 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 1131462001349 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1131462001350 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 1131462001351 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 1131462001352 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 1131462001353 dimer interface [polypeptide binding]; other site 1131462001354 ADP-ribose binding site [chemical binding]; other site 1131462001355 active site 1131462001356 nudix motif; other site 1131462001357 metal binding site [ion binding]; metal-binding site 1131462001358 Integral membrane protein DUF95; Region: DUF95; cl00572 1131462001359 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 1131462001360 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1131462001361 active site 1131462001362 DNA binding site [nucleotide binding] 1131462001363 Int/Topo IB signature motif; other site 1131462001364 phosphopentomutase; Provisional; Region: PRK05362 1131462001365 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1131462001366 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1131462001367 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1131462001368 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 1131462001369 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1131462001370 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 1131462001371 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1131462001372 CoA binding domain; Region: CoA_binding_2; pfam13380 1131462001373 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1131462001374 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1131462001375 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1131462001376 sporulation sigma factor SigF; Validated; Region: PRK05572 1131462001377 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1131462001378 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1131462001379 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 1131462001380 DNA binding residues [nucleotide binding] 1131462001381 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 1131462001382 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 1131462001383 ATP binding site [chemical binding]; other site 1131462001384 Mg2+ binding site [ion binding]; other site 1131462001385 G-X-G motif; other site 1131462001386 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 1131462001387 anti sigma factor interaction site; other site 1131462001388 regulatory phosphorylation site [posttranslational modification]; other site 1131462001389 SpoVA protein; Region: SpoVA; cl04298 1131462001390 stage V sporulation protein AD; Validated; Region: PRK08304 1131462001391 stage V sporulation protein AD; Provisional; Region: PRK12404 1131462001392 SpoVA protein; Region: SpoVA; cl04298 1131462001393 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1131462001394 hydrogenase 4 subunit B; Validated; Region: PRK06459 1131462001395 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1131462001396 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1131462001397 Coenzyme A binding pocket [chemical binding]; other site 1131462001398 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1131462001399 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1131462001400 Coenzyme A binding pocket [chemical binding]; other site 1131462001401 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 1131462001402 putative active site [active] 1131462001403 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 1131462001404 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1131462001405 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1131462001406 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1131462001407 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 1131462001408 active site 1131462001409 phosphorylation site [posttranslational modification] 1131462001410 intermolecular recognition site; other site 1131462001411 dimerization interface [polypeptide binding]; other site 1131462001412 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 1131462001413 DNA binding residues [nucleotide binding] 1131462001414 dimerization interface [polypeptide binding]; other site 1131462001415 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1131462001416 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1131462001417 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1131462001418 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 1131462001419 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1131462001420 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1131462001421 Walker A/P-loop; other site 1131462001422 ATP binding site [chemical binding]; other site 1131462001423 Q-loop/lid; other site 1131462001424 ABC transporter signature motif; other site 1131462001425 Walker B; other site 1131462001426 D-loop; other site 1131462001427 H-loop/switch region; other site 1131462001428 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1131462001429 Bacterial SH3 domain; Region: SH3_3; cl17532 1131462001430 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1131462001431 active site 1131462001432 Zn binding site [ion binding]; other site 1131462001433 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462001434 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1131462001435 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1131462001436 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 1131462001437 DNA binding residues [nucleotide binding] 1131462001438 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 1131462001439 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1131462001440 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 1131462001441 transmembrane helices; other site 1131462001442 Archaeal flagella assembly protein J [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlaJ; COG1955 1131462001443 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1131462001444 DHH family; Region: DHH; pfam01368 1131462001445 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 1131462001446 FOG: CBS domain [General function prediction only]; Region: COG0517 1131462001447 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 1131462001448 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1131462001449 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1131462001450 active site 1131462001451 NTP binding site [chemical binding]; other site 1131462001452 metal binding triad [ion binding]; metal-binding site 1131462001453 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1131462001454 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1131462001455 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1131462001456 active site 1131462001457 HIGH motif; other site 1131462001458 dimer interface [polypeptide binding]; other site 1131462001459 KMSKS motif; other site 1131462001460 ScpA/B protein; Region: ScpA_ScpB; cl00598 1131462001461 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1131462001462 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1131462001463 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1131462001464 active site 1131462001465 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1131462001466 substrate binding site [chemical binding]; other site 1131462001467 catalytic residues [active] 1131462001468 dimer interface [polypeptide binding]; other site 1131462001469 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1131462001470 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 1131462001471 Predicted membrane protein [Function unknown]; Region: COG2323 1131462001472 plasmid segregation protein ParM; Provisional; Region: PRK13917 1131462001473 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 1131462001474 Mg binding site [ion binding]; other site 1131462001475 nucleotide binding site [chemical binding]; other site 1131462001476 putative protofilament interface [polypeptide binding]; other site 1131462001477 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1131462001478 active site 1131462001479 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1131462001480 dimer interface [polypeptide binding]; other site 1131462001481 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1131462001482 Ligand Binding Site [chemical binding]; other site 1131462001483 Molecular Tunnel; other site 1131462001484 anthranilate synthase; Provisional; Region: PRK13566 1131462001485 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1131462001486 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1131462001487 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1131462001488 glutamine binding [chemical binding]; other site 1131462001489 catalytic triad [active] 1131462001490 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 1131462001491 active site 1131462001492 catalytic residues [active] 1131462001493 metal binding site [ion binding]; metal-binding site 1131462001494 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1131462001495 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 1131462001496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462001497 catalytic residue [active] 1131462001498 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1131462001499 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 1131462001500 substrate binding site [chemical binding]; other site 1131462001501 active site 1131462001502 catalytic residues [active] 1131462001503 heterodimer interface [polypeptide binding]; other site 1131462001504 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1131462001505 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1131462001506 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1131462001507 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 1131462001508 active site 1131462001509 ribulose/triose binding site [chemical binding]; other site 1131462001510 phosphate binding site [ion binding]; other site 1131462001511 substrate (anthranilate) binding pocket [chemical binding]; other site 1131462001512 product (indole) binding pocket [chemical binding]; other site 1131462001513 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 1131462001514 active site 1131462001515 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 1131462001516 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1131462001517 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 1131462001518 putative active site [active] 1131462001519 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1131462001520 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 1131462001521 NodB motif; other site 1131462001522 putative active site [active] 1131462001523 putative catalytic site [active] 1131462001524 putative Zn binding site [ion binding]; other site 1131462001525 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 1131462001526 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 1131462001527 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 1131462001528 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1131462001529 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1131462001530 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1131462001531 KMSKS motif; other site 1131462001532 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1131462001533 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1131462001534 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1131462001535 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1131462001536 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1131462001537 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1131462001538 metal binding site [ion binding]; metal-binding site 1131462001539 dimer interface [polypeptide binding]; other site 1131462001540 CAAX protease self-immunity; Region: Abi; pfam02517 1131462001541 Chromate transporter; Region: Chromate_transp; pfam02417 1131462001542 Chromate transporter; Region: Chromate_transp; pfam02417 1131462001543 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1131462001544 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1131462001545 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 1131462001546 DNA binding residues [nucleotide binding] 1131462001547 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 1131462001548 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 1131462001549 reductive dehalogenase; Region: RDH; TIGR02486 1131462001550 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462001551 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1131462001552 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 1131462001553 ligand binding site [chemical binding]; other site 1131462001554 flexible hinge region; other site 1131462001555 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 1131462001556 non-specific DNA interactions [nucleotide binding]; other site 1131462001557 DNA binding site [nucleotide binding] 1131462001558 sequence specific DNA binding site [nucleotide binding]; other site 1131462001559 putative cAMP binding site [chemical binding]; other site 1131462001560 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1131462001561 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1131462001562 putative active site [active] 1131462001563 putative NTP binding site [chemical binding]; other site 1131462001564 putative nucleic acid binding site [nucleotide binding]; other site 1131462001565 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1131462001566 Predicted membrane protein [Function unknown]; Region: COG3462 1131462001567 Short C-terminal domain; Region: SHOCT; pfam09851 1131462001568 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1131462001569 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1131462001570 chaperone protein DnaJ; Provisional; Region: PRK14299 1131462001571 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 1131462001572 HSP70 interaction site [polypeptide binding]; other site 1131462001573 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1131462001574 substrate binding site [polypeptide binding]; other site 1131462001575 dimer interface [polypeptide binding]; other site 1131462001576 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1131462001577 Clp amino terminal domain; Region: Clp_N; pfam02861 1131462001578 Clp amino terminal domain; Region: Clp_N; pfam02861 1131462001579 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 1131462001580 Walker A motif; other site 1131462001581 ATP binding site [chemical binding]; other site 1131462001582 Walker B motif; other site 1131462001583 arginine finger; other site 1131462001584 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 1131462001585 Walker A motif; other site 1131462001586 ATP binding site [chemical binding]; other site 1131462001587 Walker B motif; other site 1131462001588 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1131462001589 Coat F domain; Region: Coat_F; cl17715 1131462001590 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 1131462001591 homopentamer interface [polypeptide binding]; other site 1131462001592 active site 1131462001593 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1131462001594 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1131462001595 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 1131462001596 dimerization interface [polypeptide binding]; other site 1131462001597 active site 1131462001598 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1131462001599 Lumazine binding domain; Region: Lum_binding; pfam00677 1131462001600 Lumazine binding domain; Region: Lum_binding; pfam00677 1131462001601 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1131462001602 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 1131462001603 catalytic motif [active] 1131462001604 Zn binding site [ion binding]; other site 1131462001605 RibD C-terminal domain; Region: RibD_C; cl17279 1131462001606 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1131462001607 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1131462001608 Protein of unknown function (DUF975); Region: DUF975; cl10504 1131462001609 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1131462001610 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 1131462001611 non-specific DNA interactions [nucleotide binding]; other site 1131462001612 DNA binding site [nucleotide binding] 1131462001613 sequence specific DNA binding site [nucleotide binding]; other site 1131462001614 putative cAMP binding site [chemical binding]; other site 1131462001615 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1131462001616 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1131462001617 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 1131462001618 Predicted permeases [General function prediction only]; Region: COG0701 1131462001619 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 1131462001620 Sensor protein DegS; Region: DegS; pfam05384 1131462001621 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1131462001622 Histidine kinase; Region: HisKA_3; pfam07730 1131462001623 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 1131462001624 ATP binding site [chemical binding]; other site 1131462001625 Mg2+ binding site [ion binding]; other site 1131462001626 G-X-G motif; other site 1131462001627 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1131462001628 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 1131462001629 active site 1131462001630 phosphorylation site [posttranslational modification] 1131462001631 intermolecular recognition site; other site 1131462001632 dimerization interface [polypeptide binding]; other site 1131462001633 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 1131462001634 DNA binding residues [nucleotide binding] 1131462001635 dimerization interface [polypeptide binding]; other site 1131462001636 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1131462001637 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1131462001638 Beta-Casp domain; Region: Beta-Casp; smart01027 1131462001639 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1131462001640 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462001641 Zn2+ binding site [ion binding]; other site 1131462001642 Mg2+ binding site [ion binding]; other site 1131462001643 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1131462001644 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1131462001645 hypothetical protein; Validated; Region: PRK08116 1131462001646 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 1131462001647 Walker A motif; other site 1131462001648 ATP binding site [chemical binding]; other site 1131462001649 Walker B motif; other site 1131462001650 Transglutaminase family, C-terminal ig like domain; Region: Transglut_C; pfam00927 1131462001651 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1131462001652 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 1131462001653 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 1131462001654 Uncharacterized conserved protein [Function unknown]; Region: COG1633 1131462001655 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1131462001656 dinuclear metal binding motif [ion binding]; other site 1131462001657 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1131462001658 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1131462001659 Uncharacterized conserved protein [Function unknown]; Region: COG1615 1131462001660 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 1131462001661 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1131462001662 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1131462001663 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1131462001664 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1131462001665 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462001666 Rhomboid family; Region: Rhomboid; pfam01694 1131462001667 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 1131462001668 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1131462001669 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1131462001670 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 1131462001671 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1131462001672 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1131462001673 oligomer interface [polypeptide binding]; other site 1131462001674 active site 1131462001675 metal binding site [ion binding]; metal-binding site 1131462001676 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1131462001677 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1131462001678 oligomer interface [polypeptide binding]; other site 1131462001679 active site 1131462001680 metal binding site [ion binding]; metal-binding site 1131462001681 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1131462001682 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1131462001683 oligomer interface [polypeptide binding]; other site 1131462001684 active site 1131462001685 metal binding site [ion binding]; metal-binding site 1131462001686 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 1131462001687 AIR carboxylase; Region: AIRC; smart01001 1131462001688 Predicted membrane protein [Function unknown]; Region: COG4905 1131462001689 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 1131462001690 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 1131462001691 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1131462001692 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1131462001693 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1131462001694 pyruvate kinase; Provisional; Region: PRK06354 1131462001695 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 1131462001696 domain interfaces; other site 1131462001697 active site 1131462001698 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 1131462001699 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1131462001700 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1131462001701 DNA-binding site [nucleotide binding]; DNA binding site 1131462001702 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1131462001703 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1131462001704 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 1131462001705 P-loop; other site 1131462001706 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 1131462001707 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462001708 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1131462001709 G5 domain; Region: G5; pfam07501 1131462001710 Peptidase family M23; Region: Peptidase_M23; pfam01551 1131462001711 EDD domain protein, DegV family; Region: DegV; TIGR00762 1131462001712 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1131462001713 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 1131462001714 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1131462001715 TRAM domain; Region: TRAM; pfam01938 1131462001716 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1131462001717 MutS domain I; Region: MutS_I; pfam01624 1131462001718 MutS domain II; Region: MutS_II; pfam05188 1131462001719 MutS domain III; Region: MutS_III; pfam05192 1131462001720 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1131462001721 Walker A/P-loop; other site 1131462001722 ATP binding site [chemical binding]; other site 1131462001723 Q-loop/lid; other site 1131462001724 ABC transporter signature motif; other site 1131462001725 Walker B; other site 1131462001726 D-loop; other site 1131462001727 H-loop/switch region; other site 1131462001728 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1131462001729 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1131462001730 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1131462001731 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1131462001732 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 1131462001733 active site 1131462001734 Zn binding site [ion binding]; other site 1131462001735 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1131462001736 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 1131462001737 ATP binding site [chemical binding]; other site 1131462001738 Mg2+ binding site [ion binding]; other site 1131462001739 G-X-G motif; other site 1131462001740 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1131462001741 ATP binding site [chemical binding]; other site 1131462001742 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 1131462001743 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 1131462001744 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1131462001745 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1131462001746 bacterial Hfq-like; Region: Hfq; cd01716 1131462001747 hexamer interface [polypeptide binding]; other site 1131462001748 Sm1 motif; other site 1131462001749 RNA binding site [nucleotide binding]; other site 1131462001750 Sm2 motif; other site 1131462001751 stage V sporulation protein K; Region: spore_V_K; TIGR02881 1131462001752 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 1131462001753 Walker A motif; other site 1131462001754 ATP binding site [chemical binding]; other site 1131462001755 Walker B motif; other site 1131462001756 arginine finger; other site 1131462001757 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 1131462001758 Aluminium resistance protein; Region: Alum_res; pfam06838 1131462001759 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1131462001760 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 1131462001761 Catalytic site [active] 1131462001762 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1131462001763 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1131462001764 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1131462001765 LexA repressor; Validated; Region: PRK00215 1131462001766 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 1131462001767 putative DNA binding site [nucleotide binding]; other site 1131462001768 putative Zn2+ binding site [ion binding]; other site 1131462001769 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 1131462001770 Catalytic site [active] 1131462001771 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 1131462001772 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1131462001773 Peptidase family M23; Region: Peptidase_M23; pfam01551 1131462001774 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 1131462001775 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 1131462001776 Protein of unknown function (DUF3832); Region: DUF3832; pfam12909 1131462001777 EDD domain protein, DegV family; Region: DegV; TIGR00762 1131462001778 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1131462001779 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 1131462001780 Amidinotransferase; Region: Amidinotransf; cl12043 1131462001781 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1131462001782 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1131462001783 FtsX-like permease family; Region: FtsX; pfam02687 1131462001784 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1131462001785 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1131462001786 Walker A/P-loop; other site 1131462001787 ATP binding site [chemical binding]; other site 1131462001788 Q-loop/lid; other site 1131462001789 ABC transporter signature motif; other site 1131462001790 Walker B; other site 1131462001791 D-loop; other site 1131462001792 H-loop/switch region; other site 1131462001793 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 1131462001794 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 1131462001795 carboxyltransferase (CT) interaction site; other site 1131462001796 biotinylation site [posttranslational modification]; other site 1131462001797 HlyD family secretion protein; Region: HlyD_3; pfam13437 1131462001798 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 1131462001799 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1131462001800 dimerization interface 3.5A [polypeptide binding]; other site 1131462001801 active site 1131462001802 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 1131462001803 DNA-binding site [nucleotide binding]; DNA binding site 1131462001804 RNA-binding motif; other site 1131462001805 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1131462001806 Transposase; Region: HTH_Tnp_1; pfam01527 1131462001807 putative transposase OrfB; Reviewed; Region: PHA02517 1131462001808 HTH-like domain; Region: HTH_21; pfam13276 1131462001809 Integrase core domain; Region: rve; pfam00665 1131462001810 Integrase core domain; Region: rve_3; pfam13683 1131462001811 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 1131462001812 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1131462001813 active site 1131462001814 FMN binding site [chemical binding]; other site 1131462001815 substrate binding site [chemical binding]; other site 1131462001816 3Fe-4S cluster binding site [ion binding]; other site 1131462001817 tetrahydromethanopterin S-methyltransferase subunit H; Provisional; Region: PRK00979 1131462001818 Tetrahydromethanopterin S-methyltransferase, subunit H [Coenzyme metabolism]; Region: MtrH; cl15798 1131462001819 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1131462001820 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1131462001821 putative dimer interface [polypeptide binding]; other site 1131462001822 active site pocket [active] 1131462001823 putative cataytic base [active] 1131462001824 Accessory gene regulator B; Region: AgrB; pfam04647 1131462001825 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1131462001826 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1131462001827 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1131462001828 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1131462001829 ligand binding site [chemical binding]; other site 1131462001830 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 1131462001831 PAS domain; Region: PAS_9; pfam13426 1131462001832 putative active site [active] 1131462001833 heme pocket [chemical binding]; other site 1131462001834 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462001835 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462001836 metal binding site [ion binding]; metal-binding site 1131462001837 active site 1131462001838 I-site; other site 1131462001839 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1131462001840 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 1131462001841 putative metal binding site [ion binding]; other site 1131462001842 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1131462001843 DNA topoisomerase III; Provisional; Region: PRK07726 1131462001844 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 1131462001845 active site 1131462001846 putative interdomain interaction site [polypeptide binding]; other site 1131462001847 putative metal-binding site [ion binding]; other site 1131462001848 putative nucleotide binding site [chemical binding]; other site 1131462001849 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 1131462001850 domain I; other site 1131462001851 DNA binding groove [nucleotide binding] 1131462001852 phosphate binding site [ion binding]; other site 1131462001853 domain II; other site 1131462001854 domain III; other site 1131462001855 nucleotide binding site [chemical binding]; other site 1131462001856 catalytic site [active] 1131462001857 domain IV; other site 1131462001858 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 1131462001859 DNA topoisomerase III; Provisional; Region: PRK07726 1131462001860 active site 1131462001861 putative interdomain interaction site [polypeptide binding]; other site 1131462001862 putative metal-binding site [ion binding]; other site 1131462001863 putative nucleotide binding site [chemical binding]; other site 1131462001864 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 1131462001865 domain I; other site 1131462001866 DNA binding groove [nucleotide binding] 1131462001867 phosphate binding site [ion binding]; other site 1131462001868 domain II; other site 1131462001869 domain III; other site 1131462001870 nucleotide binding site [chemical binding]; other site 1131462001871 catalytic site [active] 1131462001872 domain IV; other site 1131462001873 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1131462001874 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 1131462001875 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1131462001876 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1131462001877 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 1131462001878 active site 1131462001879 phosphorylation site [posttranslational modification] 1131462001880 intermolecular recognition site; other site 1131462001881 dimerization interface [polypeptide binding]; other site 1131462001882 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1131462001883 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 1131462001884 ATP binding site [chemical binding]; other site 1131462001885 Mg++ binding site [ion binding]; other site 1131462001886 motif III; other site 1131462001887 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 1131462001888 nucleotide binding region [chemical binding]; other site 1131462001889 ATP-binding site [chemical binding]; other site 1131462001890 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 1131462001891 RNA binding site [nucleotide binding]; other site 1131462001892 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1131462001893 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1131462001894 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 1131462001895 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1131462001896 active site 1131462001897 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1131462001898 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1131462001899 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1131462001900 acyl-activating enzyme (AAE) consensus motif; other site 1131462001901 AMP binding site [chemical binding]; other site 1131462001902 active site 1131462001903 CoA binding site [chemical binding]; other site 1131462001904 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1131462001905 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1131462001906 acyl-activating enzyme (AAE) consensus motif; other site 1131462001907 AMP binding site [chemical binding]; other site 1131462001908 active site 1131462001909 CoA binding site [chemical binding]; other site 1131462001910 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 1131462001911 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 1131462001912 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1131462001913 dimer interface [polypeptide binding]; other site 1131462001914 PYR/PP interface [polypeptide binding]; other site 1131462001915 TPP binding site [chemical binding]; other site 1131462001916 substrate binding site [chemical binding]; other site 1131462001917 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 1131462001918 TPP-binding site; other site 1131462001919 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1131462001920 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1131462001921 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1131462001922 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462001923 Walker A/P-loop; other site 1131462001924 ATP binding site [chemical binding]; other site 1131462001925 Q-loop/lid; other site 1131462001926 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1131462001927 ABC transporter signature motif; other site 1131462001928 Walker B; other site 1131462001929 D-loop; other site 1131462001930 H-loop/switch region; other site 1131462001931 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1131462001932 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1131462001933 active site 1131462001934 metal binding site [ion binding]; metal-binding site 1131462001935 DNA binding site [nucleotide binding] 1131462001936 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1131462001937 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 1131462001938 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 1131462001939 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_2; cd04602 1131462001940 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 1131462001941 active site 1131462001942 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1131462001943 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 1131462001944 dimer interface [polypeptide binding]; other site 1131462001945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462001946 catalytic residue [active] 1131462001947 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1131462001948 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1131462001949 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1131462001950 Walker A/P-loop; other site 1131462001951 ATP binding site [chemical binding]; other site 1131462001952 Q-loop/lid; other site 1131462001953 ABC transporter signature motif; other site 1131462001954 Walker B; other site 1131462001955 D-loop; other site 1131462001956 H-loop/switch region; other site 1131462001957 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462001958 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462001959 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462001960 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1131462001961 PEGA domain; Region: PEGA; pfam08308 1131462001962 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cd10585 1131462001963 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 1131462001964 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1131462001965 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1131462001966 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 1131462001967 active site 1131462001968 phosphorylation site [posttranslational modification] 1131462001969 intermolecular recognition site; other site 1131462001970 dimerization interface [polypeptide binding]; other site 1131462001971 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 1131462001972 DNA binding residues [nucleotide binding] 1131462001973 dimerization interface [polypeptide binding]; other site 1131462001974 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1131462001975 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 1131462001976 ATP binding site [chemical binding]; other site 1131462001977 Mg2+ binding site [ion binding]; other site 1131462001978 G-X-G motif; other site 1131462001979 Trans-Isoprenyl Diphosphate Synthases; Region: Trans_IPPS; cd00867 1131462001980 substrate binding pocket [chemical binding]; other site 1131462001981 substrate-Mg2+ binding site; other site 1131462001982 aspartate-rich region 1; other site 1131462001983 aspartate-rich region 2; other site 1131462001984 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1131462001985 hypothetical protein; Provisional; Region: PRK02877 1131462001986 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462001987 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462001988 metal binding site [ion binding]; metal-binding site 1131462001989 active site 1131462001990 I-site; other site 1131462001991 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1131462001992 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462001993 Zn2+ binding site [ion binding]; other site 1131462001994 Mg2+ binding site [ion binding]; other site 1131462001995 oligosaccharyl transferase, archaeosortase A system-associated; Region: archaeo_STT3; TIGR04154 1131462001996 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1131462001997 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1131462001998 putative active site; other site 1131462001999 catalytic triad [active] 1131462002000 putative dimer interface [polypeptide binding]; other site 1131462002001 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1131462002002 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1131462002003 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1131462002004 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1131462002005 acyl-activating enzyme (AAE) consensus motif; other site 1131462002006 AMP binding site [chemical binding]; other site 1131462002007 active site 1131462002008 CoA binding site [chemical binding]; other site 1131462002009 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1131462002010 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 1131462002011 non-specific DNA binding site [nucleotide binding]; other site 1131462002012 salt bridge; other site 1131462002013 sequence-specific DNA binding site [nucleotide binding]; other site 1131462002014 Cupin domain; Region: Cupin_2; pfam07883 1131462002015 PilZ domain; Region: PilZ; pfam07238 1131462002016 Predicted permeases [General function prediction only]; Region: COG0679 1131462002017 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1131462002018 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1131462002019 minor groove reading motif; other site 1131462002020 helix-hairpin-helix signature motif; other site 1131462002021 substrate binding pocket [chemical binding]; other site 1131462002022 active site 1131462002023 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 1131462002024 DNA binding and oxoG recognition site [nucleotide binding] 1131462002025 ribonuclease Y; Region: RNase_Y; TIGR03319 1131462002026 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1131462002027 active site 1131462002028 metal binding site [ion binding]; metal-binding site 1131462002029 DNA binding site [nucleotide binding] 1131462002030 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1131462002031 Influenza RNA-dependent RNA polymerase subunit PA; Region: Flu_PA; pfam00603 1131462002032 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1131462002033 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1131462002034 active site 1131462002035 metal binding site [ion binding]; metal-binding site 1131462002036 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1131462002037 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1131462002038 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1131462002039 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1131462002040 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1131462002041 NlpC/P60 family; Region: NLPC_P60; pfam00877 1131462002042 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1131462002043 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 1131462002044 substrate binding pocket [chemical binding]; other site 1131462002045 membrane-bound complex binding site; other site 1131462002046 hinge residues; other site 1131462002047 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1131462002048 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 1131462002049 dimer interface [polypeptide binding]; other site 1131462002050 phosphorylation site [posttranslational modification] 1131462002051 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 1131462002052 ATP binding site [chemical binding]; other site 1131462002053 Mg2+ binding site [ion binding]; other site 1131462002054 G-X-G motif; other site 1131462002055 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1131462002056 Response regulator receiver domain; Region: Response_reg; pfam00072 1131462002057 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 1131462002058 active site 1131462002059 phosphorylation site [posttranslational modification] 1131462002060 intermolecular recognition site; other site 1131462002061 dimerization interface [polypeptide binding]; other site 1131462002062 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; cl00086 1131462002063 putative binding surface; other site 1131462002064 active site 1131462002065 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1131462002066 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 1131462002067 active site 1131462002068 phosphorylation site [posttranslational modification] 1131462002069 intermolecular recognition site; other site 1131462002070 dimerization interface [polypeptide binding]; other site 1131462002071 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462002072 Zn2+ binding site [ion binding]; other site 1131462002073 Mg2+ binding site [ion binding]; other site 1131462002074 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1131462002075 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1131462002076 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1131462002077 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 1131462002078 RNA binding surface [nucleotide binding]; other site 1131462002079 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1131462002080 active site 1131462002081 Zn binding site [ion binding]; other site 1131462002082 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1131462002083 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1131462002084 Peptidase family M23; Region: Peptidase_M23; pfam01551 1131462002085 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1131462002086 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1131462002087 putative active site [active] 1131462002088 putative NTP binding site [chemical binding]; other site 1131462002089 putative nucleic acid binding site [nucleotide binding]; other site 1131462002090 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1131462002091 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1131462002092 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 1131462002093 DNA binding residues [nucleotide binding] 1131462002094 dimerization interface [polypeptide binding]; other site 1131462002095 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1131462002096 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1131462002097 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462002098 Walker A/P-loop; other site 1131462002099 ATP binding site [chemical binding]; other site 1131462002100 Q-loop/lid; other site 1131462002101 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1131462002102 ABC transporter signature motif; other site 1131462002103 Walker B; other site 1131462002104 D-loop; other site 1131462002105 ABC transporter; Region: ABC_tran_2; pfam12848 1131462002106 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1131462002107 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1131462002108 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1131462002109 ABC transporter; Region: ABC_tran_2; pfam12848 1131462002110 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1131462002111 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1131462002112 Predicted transcriptional regulators [Transcription]; Region: COG1695 1131462002113 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1131462002114 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1131462002115 EamA-like transporter family; Region: EamA; pfam00892 1131462002116 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1131462002117 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1131462002118 putative active site [active] 1131462002119 catalytic triad [active] 1131462002120 dimer interface [polypeptide binding]; other site 1131462002121 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 1131462002122 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1131462002123 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 1131462002124 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 1131462002125 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1131462002126 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 1131462002127 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1131462002128 hydrogenase 4 subunit F; Validated; Region: PRK06458 1131462002129 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1131462002130 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 1131462002131 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1131462002132 NADH dehydrogenase; Region: NADHdh; cl00469 1131462002133 hydrogenase 4 subunit B; Validated; Region: PRK06521 1131462002134 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1131462002135 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1131462002136 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1131462002137 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1131462002138 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1131462002139 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1131462002140 Spore germination protein; Region: Spore_permease; cl17796 1131462002141 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1131462002142 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1131462002143 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1131462002144 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 1131462002145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462002146 homodimer interface [polypeptide binding]; other site 1131462002147 catalytic residue [active] 1131462002148 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1131462002149 ligand binding site [chemical binding]; other site 1131462002150 active site 1131462002151 UGI interface [polypeptide binding]; other site 1131462002152 catalytic site [active] 1131462002153 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1131462002154 S1 domain; Region: S1_2; pfam13509 1131462002155 S1 domain; Region: S1_2; pfam13509 1131462002156 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 1131462002157 RNA binding site [nucleotide binding]; other site 1131462002158 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 1131462002159 active site clefts [active] 1131462002160 zinc binding site [ion binding]; other site 1131462002161 dimer interface [polypeptide binding]; other site 1131462002162 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1131462002163 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1131462002164 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 1131462002165 active site 1131462002166 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 1131462002167 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1131462002168 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1131462002169 catalytic residue [active] 1131462002170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 1131462002171 G5 domain; Region: G5; pfam07501 1131462002172 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1131462002173 NlpC/P60 family; Region: NLPC_P60; pfam00877 1131462002174 Protein of unknown function (DUF456); Region: DUF456; pfam04306 1131462002175 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1131462002176 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1131462002177 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1131462002178 Walker A/P-loop; other site 1131462002179 ATP binding site [chemical binding]; other site 1131462002180 Q-loop/lid; other site 1131462002181 ABC transporter signature motif; other site 1131462002182 Walker B; other site 1131462002183 D-loop; other site 1131462002184 H-loop/switch region; other site 1131462002185 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1131462002186 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1131462002187 DNA binding residues [nucleotide binding] 1131462002188 dimer interface [polypeptide binding]; other site 1131462002189 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1131462002190 Rubrerythrin [Energy production and conversion]; Region: COG1592 1131462002191 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1131462002192 binuclear metal center [ion binding]; other site 1131462002193 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 1131462002194 iron binding site [ion binding]; other site 1131462002195 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 1131462002196 putative substrate translocation pore; other site 1131462002197 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1131462002198 MarR family; Region: MarR_2; pfam12802 1131462002199 MarR family; Region: MarR_2; cl17246 1131462002200 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1131462002201 classical (c) SDRs; Region: SDR_c; cd05233 1131462002202 NAD(P) binding site [chemical binding]; other site 1131462002203 active site 1131462002204 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1131462002205 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 1131462002206 dimerization interface [polypeptide binding]; other site 1131462002207 domain crossover interface; other site 1131462002208 redox-dependent activation switch; other site 1131462002209 Predicted membrane protein [Function unknown]; Region: COG1511 1131462002210 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1131462002211 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1131462002212 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1131462002213 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 1131462002214 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 1131462002215 cobyric acid synthase; Provisional; Region: PRK00784 1131462002216 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 1131462002217 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 1131462002218 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1131462002219 catalytic triad [active] 1131462002220 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 1131462002221 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 1131462002222 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 1131462002223 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 1131462002224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462002225 homodimer interface [polypeptide binding]; other site 1131462002226 catalytic residue [active] 1131462002227 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 1131462002228 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1131462002229 catalytic core [active] 1131462002230 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 1131462002231 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1131462002232 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 1131462002233 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1131462002234 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 1131462002235 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1131462002236 catalytic triad [active] 1131462002237 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1131462002238 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462002239 Walker A/P-loop; other site 1131462002240 ATP binding site [chemical binding]; other site 1131462002241 Q-loop/lid; other site 1131462002242 ABC transporter signature motif; other site 1131462002243 Walker B; other site 1131462002244 D-loop; other site 1131462002245 H-loop/switch region; other site 1131462002246 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1131462002247 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 1131462002248 S-adenosylmethionine binding site [chemical binding]; other site 1131462002249 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1131462002250 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462002251 Walker A/P-loop; other site 1131462002252 ATP binding site [chemical binding]; other site 1131462002253 Q-loop/lid; other site 1131462002254 ABC transporter signature motif; other site 1131462002255 Walker B; other site 1131462002256 D-loop; other site 1131462002257 H-loop/switch region; other site 1131462002258 ABC transporter; Region: ABC_tran_2; pfam12848 1131462002259 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1131462002260 Ion transport protein; Region: Ion_trans; pfam00520 1131462002261 Ion channel; Region: Ion_trans_2; pfam07885 1131462002262 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1131462002263 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462002264 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462002265 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462002266 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1131462002267 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1131462002268 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1131462002269 Cysteine-rich domain; Region: CCG; pfam02754 1131462002270 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1131462002271 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1131462002272 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 1131462002273 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1131462002274 Putative glucoamylase; Region: Glycoamylase; pfam10091 1131462002275 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1131462002276 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1131462002277 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1131462002278 Protein of unknown function, DUF608; Region: DUF608; pfam04685 1131462002279 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1131462002280 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1131462002281 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1131462002282 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1131462002283 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1131462002284 active site 1131462002285 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1131462002286 Winged helix-turn helix; Region: HTH_29; pfam13551 1131462002287 Winged helix-turn helix; Region: HTH_29; pfam13551 1131462002288 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 1131462002289 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 1131462002290 FMN binding site [chemical binding]; other site 1131462002291 dimer interface [polypeptide binding]; other site 1131462002292 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1131462002293 Sulfatase; Region: Sulfatase; pfam00884 1131462002294 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 1131462002295 dimerization interface [polypeptide binding]; other site 1131462002296 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1131462002297 ATP binding site [chemical binding]; other site 1131462002298 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 1131462002299 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1131462002300 HupF/HypC family; Region: HupF_HypC; pfam01455 1131462002301 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 1131462002302 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 1131462002303 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 1131462002304 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 1131462002305 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1131462002306 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1131462002307 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 1131462002308 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1131462002309 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 1131462002310 NADH dehydrogenase; Region: NADHdh; cl00469 1131462002311 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1131462002312 NADH:ubiquinone oxidoreductase subunit 5 (chain L)/Multisubunit Na+/H+ antiporter, MnhA subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NuoL; COG1009 1131462002313 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1131462002314 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1131462002315 aspartate aminotransferase; Provisional; Region: PRK05764 1131462002316 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 1131462002317 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462002318 homodimer interface [polypeptide binding]; other site 1131462002319 catalytic residue [active] 1131462002320 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1131462002321 FtsX-like permease family; Region: FtsX; pfam02687 1131462002322 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1131462002323 FtsX-like permease family; Region: FtsX; pfam02687 1131462002324 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1131462002325 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1131462002326 Walker A/P-loop; other site 1131462002327 ATP binding site [chemical binding]; other site 1131462002328 Q-loop/lid; other site 1131462002329 ABC transporter signature motif; other site 1131462002330 Walker B; other site 1131462002331 D-loop; other site 1131462002332 H-loop/switch region; other site 1131462002333 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1131462002334 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 1131462002335 dimer interface [polypeptide binding]; other site 1131462002336 phosphorylation site [posttranslational modification] 1131462002337 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 1131462002338 ATP binding site [chemical binding]; other site 1131462002339 Mg2+ binding site [ion binding]; other site 1131462002340 G-X-G motif; other site 1131462002341 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1131462002342 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 1131462002343 active site 1131462002344 phosphorylation site [posttranslational modification] 1131462002345 intermolecular recognition site; other site 1131462002346 dimerization interface [polypeptide binding]; other site 1131462002347 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 1131462002348 DNA binding site [nucleotide binding] 1131462002349 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1131462002350 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1131462002351 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1131462002352 DNA binding residues [nucleotide binding] 1131462002353 dimer interface [polypeptide binding]; other site 1131462002354 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1131462002355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1131462002356 NAD(P) binding site [chemical binding]; other site 1131462002357 active site 1131462002358 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1131462002359 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1131462002360 Walker A/P-loop; other site 1131462002361 ATP binding site [chemical binding]; other site 1131462002362 Q-loop/lid; other site 1131462002363 ABC transporter signature motif; other site 1131462002364 Walker B; other site 1131462002365 D-loop; other site 1131462002366 H-loop/switch region; other site 1131462002367 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1131462002368 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1131462002369 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1131462002370 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 1131462002371 non-specific DNA binding site [nucleotide binding]; other site 1131462002372 salt bridge; other site 1131462002373 sequence-specific DNA binding site [nucleotide binding]; other site 1131462002374 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 1131462002375 elongation factor G; Reviewed; Region: PRK12740 1131462002376 G1 box; other site 1131462002377 putative GEF interaction site [polypeptide binding]; other site 1131462002378 GTP/Mg2+ binding site [chemical binding]; other site 1131462002379 Switch I region; other site 1131462002380 G2 box; other site 1131462002381 G3 box; other site 1131462002382 Switch II region; other site 1131462002383 G4 box; other site 1131462002384 G5 box; other site 1131462002385 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 1131462002386 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 1131462002387 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 1131462002388 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1131462002389 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1131462002390 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1131462002391 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1131462002392 homodecamer interface [polypeptide binding]; other site 1131462002393 GTP cyclohydrolase I; Provisional; Region: PLN03044 1131462002394 active site 1131462002395 putative catalytic site residues [active] 1131462002396 zinc binding site [ion binding]; other site 1131462002397 GTP-CH-I/GFRP interaction surface; other site 1131462002398 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1131462002399 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1131462002400 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 1131462002401 TrkA-C domain; Region: TrkA_C; pfam02080 1131462002402 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1131462002403 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 1131462002404 S-adenosylmethionine binding site [chemical binding]; other site 1131462002405 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1131462002406 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 1131462002407 binding surface 1131462002408 TPR motif; other site 1131462002409 TPR repeat; Region: TPR_11; pfam13414 1131462002410 TPR repeat; Region: TPR_11; pfam13414 1131462002411 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 1131462002412 TPR motif; other site 1131462002413 binding surface 1131462002414 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1131462002415 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 1131462002416 TPR motif; other site 1131462002417 TPR repeat; Region: TPR_11; pfam13414 1131462002418 binding surface 1131462002419 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1131462002420 PLD-like domain; Region: PLDc_2; pfam13091 1131462002421 putative active site [active] 1131462002422 catalytic site [active] 1131462002423 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1131462002424 PLD-like domain; Region: PLDc_2; pfam13091 1131462002425 putative active site [active] 1131462002426 catalytic site [active] 1131462002427 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1131462002428 Sulfatase; Region: Sulfatase; pfam00884 1131462002429 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1131462002430 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 1131462002431 oligomerization interface [polypeptide binding]; other site 1131462002432 active site 1131462002433 metal binding site [ion binding]; metal-binding site 1131462002434 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 1131462002435 cell division protein FtsA; Region: ftsA; TIGR01174 1131462002436 Cell division protein FtsA; Region: FtsA; smart00842 1131462002437 Cell division protein FtsA; Region: FtsA; pfam14450 1131462002438 6-phosphofructokinase; Provisional; Region: PRK03202 1131462002439 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1131462002440 active site 1131462002441 ADP/pyrophosphate binding site [chemical binding]; other site 1131462002442 dimerization interface [polypeptide binding]; other site 1131462002443 allosteric effector site; other site 1131462002444 fructose-1,6-bisphosphate binding site; other site 1131462002445 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 1131462002446 Walker A motif; other site 1131462002447 ATP binding site [chemical binding]; other site 1131462002448 Walker B motif; other site 1131462002449 arginine finger; other site 1131462002450 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 1131462002451 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1131462002452 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1131462002453 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1131462002454 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1131462002455 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 1131462002456 TPR motif; other site 1131462002457 binding surface 1131462002458 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1131462002459 polysaccharide deacetylase family sporulation protein PdaB; Region: spore_ybaN_pdaB; TIGR02764 1131462002460 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1131462002461 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1131462002462 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1131462002463 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1131462002464 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1131462002465 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1131462002466 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1131462002467 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 1131462002468 TMP-binding site; other site 1131462002469 ATP-binding site [chemical binding]; other site 1131462002470 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 1131462002471 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 1131462002472 active site 1131462002473 phosphorylation site [posttranslational modification] 1131462002474 intermolecular recognition site; other site 1131462002475 dimerization interface [polypeptide binding]; other site 1131462002476 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 1131462002477 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1131462002478 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1131462002479 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 1131462002480 ATP binding site [chemical binding]; other site 1131462002481 DEAD_2; Region: DEAD_2; pfam06733 1131462002482 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1131462002483 DNA gyrase subunit A; Validated; Region: PRK05560 1131462002484 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1131462002485 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1131462002486 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 1131462002487 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1131462002488 catalytic residues [active] 1131462002489 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 1131462002490 putative homodimer interface [polypeptide binding]; other site 1131462002491 putative homotetramer interface [polypeptide binding]; other site 1131462002492 putative allosteric switch controlling residues; other site 1131462002493 putative metal binding site [ion binding]; other site 1131462002494 putative homodimer-homodimer interface [polypeptide binding]; other site 1131462002495 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1131462002496 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 1131462002497 dimer interface [polypeptide binding]; other site 1131462002498 anticodon binding site; other site 1131462002499 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 1131462002500 homodimer interface [polypeptide binding]; other site 1131462002501 motif 1; other site 1131462002502 active site 1131462002503 motif 2; other site 1131462002504 GAD domain; Region: GAD; pfam02938 1131462002505 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 1131462002506 motif 3; other site 1131462002507 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1131462002508 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 1131462002509 dimer interface [polypeptide binding]; other site 1131462002510 motif 1; other site 1131462002511 active site 1131462002512 motif 2; other site 1131462002513 motif 3; other site 1131462002514 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 1131462002515 anticodon binding site; other site 1131462002516 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 1131462002517 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 1131462002518 FeS/SAM binding site; other site 1131462002519 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1131462002520 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1131462002521 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462002522 Zn2+ binding site [ion binding]; other site 1131462002523 Mg2+ binding site [ion binding]; other site 1131462002524 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1131462002525 synthetase active site [active] 1131462002526 NTP binding site [chemical binding]; other site 1131462002527 metal binding site [ion binding]; metal-binding site 1131462002528 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 1131462002529 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1131462002530 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1131462002531 DHH family; Region: DHH; pfam01368 1131462002532 DHHA1 domain; Region: DHHA1; pfam02272 1131462002533 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1131462002534 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 1131462002535 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1131462002536 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1131462002537 putative valine binding site [chemical binding]; other site 1131462002538 dimer interface [polypeptide binding]; other site 1131462002539 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1131462002540 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 1131462002541 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1131462002542 PYR/PP interface [polypeptide binding]; other site 1131462002543 dimer interface [polypeptide binding]; other site 1131462002544 TPP binding site [chemical binding]; other site 1131462002545 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1131462002546 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 1131462002547 TPP-binding site [chemical binding]; other site 1131462002548 dimer interface [polypeptide binding]; other site 1131462002549 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1131462002550 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1131462002551 Protein export membrane protein; Region: SecD_SecF; pfam02355 1131462002552 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1131462002553 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1131462002554 Preprotein translocase subunit; Region: YajC; cl00806 1131462002555 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1131462002556 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1131462002557 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1131462002558 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1131462002559 Stage II sporulation protein; Region: SpoIID; pfam08486 1131462002560 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 1131462002561 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1131462002562 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 1131462002563 Walker A motif; other site 1131462002564 ATP binding site [chemical binding]; other site 1131462002565 Walker B motif; other site 1131462002566 arginine finger; other site 1131462002567 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1131462002568 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1131462002569 RuvA N terminal domain; Region: RuvA_N; pfam01330 1131462002570 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1131462002571 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 1131462002572 active site 1131462002573 putative DNA-binding cleft [nucleotide binding]; other site 1131462002574 dimer interface [polypeptide binding]; other site 1131462002575 hypothetical protein; Validated; Region: PRK00110 1131462002576 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1131462002577 dimer interface [polypeptide binding]; other site 1131462002578 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1131462002579 putative CheW interface [polypeptide binding]; other site 1131462002580 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1131462002581 Spore germination protein; Region: Spore_permease; cl17796 1131462002582 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1131462002583 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1131462002584 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 1131462002585 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1131462002586 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 1131462002587 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1131462002588 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1131462002589 4Fe-4S binding domain; Region: Fer4; pfam00037 1131462002590 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 1131462002591 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 1131462002592 molybdopterin cofactor binding site; other site 1131462002593 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 1131462002594 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 1131462002595 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1131462002596 molybdopterin cofactor binding site; other site 1131462002597 Acylphosphatase; Region: Acylphosphatase; pfam00708 1131462002598 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 1131462002599 HypF finger; Region: zf-HYPF; pfam07503 1131462002600 HypF finger; Region: zf-HYPF; pfam07503 1131462002601 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1131462002602 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1131462002603 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 1131462002604 substrate binding pocket [chemical binding]; other site 1131462002605 membrane-bound complex binding site; other site 1131462002606 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1131462002607 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1131462002608 Walker A/P-loop; other site 1131462002609 ATP binding site [chemical binding]; other site 1131462002610 Q-loop/lid; other site 1131462002611 ABC transporter signature motif; other site 1131462002612 Walker B; other site 1131462002613 D-loop; other site 1131462002614 H-loop/switch region; other site 1131462002615 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1131462002616 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 1131462002617 dimer interface [polypeptide binding]; other site 1131462002618 conserved gate region; other site 1131462002619 putative PBP binding loops; other site 1131462002620 ABC-ATPase subunit interface; other site 1131462002621 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 1131462002622 catalytic loop [active] 1131462002623 iron binding site [ion binding]; other site 1131462002624 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1131462002625 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1131462002626 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1131462002627 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1131462002628 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1131462002629 dimer interface [polypeptide binding]; other site 1131462002630 [2Fe-2S] cluster binding site [ion binding]; other site 1131462002631 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1131462002632 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1131462002633 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 1131462002634 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1131462002635 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1131462002636 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1131462002637 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 1131462002638 putative dimer interface [polypeptide binding]; other site 1131462002639 [2Fe-2S] cluster binding site [ion binding]; other site 1131462002640 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1131462002641 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1131462002642 putative catalytic cysteine [active] 1131462002643 gamma-glutamyl kinase; Provisional; Region: PRK05429 1131462002644 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 1131462002645 nucleotide binding site [chemical binding]; other site 1131462002646 homotetrameric interface [polypeptide binding]; other site 1131462002647 putative phosphate binding site [ion binding]; other site 1131462002648 putative allosteric binding site; other site 1131462002649 PUA domain; Region: PUA; pfam01472 1131462002650 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1131462002651 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1131462002652 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1131462002653 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 1131462002654 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1131462002655 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1131462002656 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1131462002657 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1131462002658 putative active site [active] 1131462002659 putative NTP binding site [chemical binding]; other site 1131462002660 putative nucleic acid binding site [nucleotide binding]; other site 1131462002661 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1131462002662 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 1131462002663 active site 1131462002664 metal binding site [ion binding]; metal-binding site 1131462002665 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1131462002666 KTSC domain; Region: KTSC; pfam13619 1131462002667 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1131462002668 Domain of unknown function DUF87; Region: DUF87; pfam01935 1131462002669 SIR2-like domain; Region: SIR2_2; pfam13289 1131462002670 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1131462002671 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1131462002672 putative active site [active] 1131462002673 putative NTP binding site [chemical binding]; other site 1131462002674 putative nucleic acid binding site [nucleotide binding]; other site 1131462002675 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1131462002676 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1131462002677 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1131462002678 MarR family; Region: MarR_2; pfam12802 1131462002679 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1131462002680 tartrate dehydrogenase; Region: TTC; TIGR02089 1131462002681 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 1131462002682 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 1131462002683 substrate binding site [chemical binding]; other site 1131462002684 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1131462002685 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1131462002686 substrate binding site [chemical binding]; other site 1131462002687 ligand binding site [chemical binding]; other site 1131462002688 2-isopropylmalate synthase; Validated; Region: PRK00915 1131462002689 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1131462002690 active site 1131462002691 catalytic residues [active] 1131462002692 metal binding site [ion binding]; metal-binding site 1131462002693 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1131462002694 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1131462002695 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1131462002696 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1131462002697 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1131462002698 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1131462002699 putative valine binding site [chemical binding]; other site 1131462002700 dimer interface [polypeptide binding]; other site 1131462002701 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1131462002702 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 1131462002703 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1131462002704 PYR/PP interface [polypeptide binding]; other site 1131462002705 dimer interface [polypeptide binding]; other site 1131462002706 TPP binding site [chemical binding]; other site 1131462002707 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1131462002708 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 1131462002709 TPP-binding site [chemical binding]; other site 1131462002710 dimer interface [polypeptide binding]; other site 1131462002711 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1131462002712 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1131462002713 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 1131462002714 homodimer interface [polypeptide binding]; other site 1131462002715 substrate-cofactor binding pocket; other site 1131462002716 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462002717 catalytic residue [active] 1131462002718 homoserine dehydrogenase; Provisional; Region: PRK06349 1131462002719 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1131462002720 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1131462002721 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 1131462002722 homoserine kinase; Provisional; Region: PRK01212 1131462002723 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1131462002724 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1131462002725 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 1131462002726 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1131462002727 catalytic residue [active] 1131462002728 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1131462002729 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 1131462002730 CoA-binding site [chemical binding]; other site 1131462002731 ATP-binding [chemical binding]; other site 1131462002732 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 1131462002733 Domain of unknown function DUF; Region: DUF204; pfam02659 1131462002734 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1131462002735 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462002736 Walker A/P-loop; other site 1131462002737 ATP binding site [chemical binding]; other site 1131462002738 Q-loop/lid; other site 1131462002739 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1131462002740 ABC transporter signature motif; other site 1131462002741 Walker B; other site 1131462002742 ABC transporter; Region: ABC_tran_2; pfam12848 1131462002743 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1131462002744 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1131462002745 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1131462002746 DNA binding site [nucleotide binding] 1131462002747 catalytic residue [active] 1131462002748 H2TH interface [polypeptide binding]; other site 1131462002749 putative catalytic residues [active] 1131462002750 turnover-facilitating residue; other site 1131462002751 intercalation triad [nucleotide binding]; other site 1131462002752 8OG recognition residue [nucleotide binding]; other site 1131462002753 putative reading head residues; other site 1131462002754 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1131462002755 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1131462002756 DNA polymerase I; Region: pola; TIGR00593 1131462002757 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1131462002758 active site 1131462002759 metal binding site 1 [ion binding]; metal-binding site 1131462002760 putative 5' ssDNA interaction site; other site 1131462002761 metal binding site 3; metal-binding site 1131462002762 metal binding site 2 [ion binding]; metal-binding site 1131462002763 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1131462002764 putative DNA binding site [nucleotide binding]; other site 1131462002765 putative metal binding site [ion binding]; other site 1131462002766 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1131462002767 active site 1131462002768 catalytic site [active] 1131462002769 substrate binding site [chemical binding]; other site 1131462002770 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1131462002771 active site 1131462002772 DNA binding site [nucleotide binding] 1131462002773 catalytic site [active] 1131462002774 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1131462002775 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1131462002776 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1131462002777 acyl-activating enzyme (AAE) consensus motif; other site 1131462002778 AMP binding site [chemical binding]; other site 1131462002779 active site 1131462002780 CoA binding site [chemical binding]; other site 1131462002781 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1131462002782 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 1131462002783 non-specific DNA binding site [nucleotide binding]; other site 1131462002784 salt bridge; other site 1131462002785 sequence-specific DNA binding site [nucleotide binding]; other site 1131462002786 Cupin domain; Region: Cupin_2; pfam07883 1131462002787 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 1131462002788 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 1131462002789 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 1131462002790 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 1131462002791 TPP-binding site [chemical binding]; other site 1131462002792 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 1131462002793 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1131462002794 dimer interface [polypeptide binding]; other site 1131462002795 PYR/PP interface [polypeptide binding]; other site 1131462002796 TPP binding site [chemical binding]; other site 1131462002797 substrate binding site [chemical binding]; other site 1131462002798 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1131462002799 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 1131462002800 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1131462002801 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1131462002802 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1131462002803 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1131462002804 active site 1131462002805 (T/H)XGH motif; other site 1131462002806 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 1131462002807 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1131462002808 active site 1131462002809 PHP Thumb interface [polypeptide binding]; other site 1131462002810 metal binding site [ion binding]; metal-binding site 1131462002811 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 1131462002812 generic binding surface II; other site 1131462002813 generic binding surface I; other site 1131462002814 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1131462002815 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1131462002816 DNA-binding site [nucleotide binding]; DNA binding site 1131462002817 DRTGG domain; Region: DRTGG; pfam07085 1131462002818 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 1131462002819 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1131462002820 active site 2 [active] 1131462002821 active site 1 [active] 1131462002822 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1131462002823 metal-dependent hydrolase; Provisional; Region: PRK00685 1131462002824 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1131462002825 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1131462002826 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1131462002827 Mg++ binding site [ion binding]; other site 1131462002828 putative catalytic motif [active] 1131462002829 substrate binding site [chemical binding]; other site 1131462002830 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1131462002831 aconitate hydratase; Validated; Region: PRK07229 1131462002832 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 1131462002833 substrate binding site [chemical binding]; other site 1131462002834 ligand binding site [chemical binding]; other site 1131462002835 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1131462002836 substrate binding site [chemical binding]; other site 1131462002837 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1131462002838 HD domain; Region: HD_4; pfam13328 1131462002839 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 1131462002840 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1131462002841 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1131462002842 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 1131462002843 non-specific DNA binding site [nucleotide binding]; other site 1131462002844 salt bridge; other site 1131462002845 sequence-specific DNA binding site [nucleotide binding]; other site 1131462002846 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1131462002847 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1131462002848 AsnC family; Region: AsnC_trans_reg; pfam01037 1131462002849 hypothetical protein; Validated; Region: PRK07682 1131462002850 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 1131462002851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462002852 homodimer interface [polypeptide binding]; other site 1131462002853 catalytic residue [active] 1131462002854 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 1131462002855 Rubredoxin [Energy production and conversion]; Region: COG1773 1131462002856 iron binding site [ion binding]; other site 1131462002857 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1131462002858 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1131462002859 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1131462002860 active site 1131462002861 NTP binding site [chemical binding]; other site 1131462002862 metal binding triad [ion binding]; metal-binding site 1131462002863 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1131462002864 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1131462002865 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 1131462002866 NAD binding site [chemical binding]; other site 1131462002867 ligand binding site [chemical binding]; other site 1131462002868 catalytic site [active] 1131462002869 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1131462002870 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1131462002871 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1131462002872 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1131462002873 active site 1131462002874 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 1131462002875 MoxR-like ATPases [General function prediction only]; Region: COG0714 1131462002876 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 1131462002877 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 1131462002878 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1131462002879 RmuC family; Region: RmuC; pfam02646 1131462002880 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1131462002881 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 1131462002882 Catalytic site [active] 1131462002883 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1131462002884 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1131462002885 putative ligand binding site [chemical binding]; other site 1131462002886 putative NAD binding site [chemical binding]; other site 1131462002887 catalytic site [active] 1131462002888 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1131462002889 calcium/proton exchanger (cax); Region: cax; TIGR00378 1131462002890 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1131462002891 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1131462002892 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1131462002893 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1131462002894 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1131462002895 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1131462002896 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1131462002897 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462002898 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1131462002899 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1131462002900 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 1131462002901 FOG: CBS domain [General function prediction only]; Region: COG0517 1131462002902 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 1131462002903 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1131462002904 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 1131462002905 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1131462002906 active site 1131462002907 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1131462002908 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1131462002909 substrate binding pocket [chemical binding]; other site 1131462002910 chain length determination region; other site 1131462002911 substrate-Mg2+ binding site; other site 1131462002912 catalytic residues [active] 1131462002913 aspartate-rich region 1; other site 1131462002914 active site lid residues [active] 1131462002915 aspartate-rich region 2; other site 1131462002916 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1131462002917 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1131462002918 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 1131462002919 substrate binding pocket [chemical binding]; other site 1131462002920 aspartate-rich region 1; other site 1131462002921 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1131462002922 Cysteine-rich domain; Region: CCG; pfam02754 1131462002923 Cysteine-rich domain; Region: CCG; pfam02754 1131462002924 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 1131462002925 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1131462002926 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1131462002927 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1131462002928 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1131462002929 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1131462002930 Ligand binding site [chemical binding]; other site 1131462002931 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1131462002932 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 1131462002933 putative active site [active] 1131462002934 putative metal binding site [ion binding]; other site 1131462002935 Cache domain; Region: Cache_1; pfam02743 1131462002936 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 1131462002937 dimerization interface [polypeptide binding]; other site 1131462002938 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1131462002939 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1131462002940 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1131462002941 dimer interface [polypeptide binding]; other site 1131462002942 putative CheW interface [polypeptide binding]; other site 1131462002943 hypothetical protein; Provisional; Region: PRK04435 1131462002944 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 1131462002945 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 1131462002946 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 1131462002947 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1131462002948 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1131462002949 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1131462002950 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 1131462002951 GTP-binding protein Der; Reviewed; Region: PRK00093 1131462002952 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1131462002953 G1 box; other site 1131462002954 GTP/Mg2+ binding site [chemical binding]; other site 1131462002955 Switch I region; other site 1131462002956 G2 box; other site 1131462002957 Switch II region; other site 1131462002958 G3 box; other site 1131462002959 G4 box; other site 1131462002960 G5 box; other site 1131462002961 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1131462002962 G1 box; other site 1131462002963 GTP/Mg2+ binding site [chemical binding]; other site 1131462002964 Switch I region; other site 1131462002965 G2 box; other site 1131462002966 G3 box; other site 1131462002967 Switch II region; other site 1131462002968 G4 box; other site 1131462002969 G5 box; other site 1131462002970 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 1131462002971 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 1131462002972 Protein of unknown function (DUF512); Region: DUF512; pfam04459 1131462002973 cell division protein FtsW; Region: ftsW; TIGR02614 1131462002974 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 1131462002975 LytB protein; Region: LYTB; cl00507 1131462002976 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 1131462002977 RNA binding site [nucleotide binding]; other site 1131462002978 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 1131462002979 RNA binding site [nucleotide binding]; other site 1131462002980 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 1131462002981 RNA binding site [nucleotide binding]; other site 1131462002982 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 1131462002983 RNA binding site [nucleotide binding]; other site 1131462002984 domain interface; other site 1131462002985 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1131462002986 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1131462002987 putative acyl-acceptor binding pocket; other site 1131462002988 cytidylate kinase; Provisional; Region: cmk; PRK00023 1131462002989 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 1131462002990 CMP-binding site; other site 1131462002991 The sites determining sugar specificity; other site 1131462002992 CAAX protease self-immunity; Region: Abi; pfam02517 1131462002993 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 1131462002994 hexamer interface [polypeptide binding]; other site 1131462002995 RNA binding site [nucleotide binding]; other site 1131462002996 Histidine-zinc binding site [chemical binding]; other site 1131462002997 flavoprotein, HI0933 family; Region: TIGR00275 1131462002998 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1131462002999 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 1131462003000 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1131462003001 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1131462003002 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1131462003003 DNA-binding site [nucleotide binding]; DNA binding site 1131462003004 FCD domain; Region: FCD; pfam07729 1131462003005 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1131462003006 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 1131462003007 RNA binding surface [nucleotide binding]; other site 1131462003008 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1131462003009 active site 1131462003010 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1131462003011 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1131462003012 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 1131462003013 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 1131462003014 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1131462003015 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1131462003016 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1131462003017 putative active site [active] 1131462003018 catalytic site [active] 1131462003019 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1131462003020 putative active site [active] 1131462003021 catalytic site [active] 1131462003022 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1131462003023 putative deacylase active site [active] 1131462003024 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1131462003025 metal binding site 2 [ion binding]; metal-binding site 1131462003026 putative DNA binding helix; other site 1131462003027 metal binding site 1 [ion binding]; metal-binding site 1131462003028 dimer interface [polypeptide binding]; other site 1131462003029 structural Zn2+ binding site [ion binding]; other site 1131462003030 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462003031 Zn2+ binding site [ion binding]; other site 1131462003032 Mg2+ binding site [ion binding]; other site 1131462003033 EDD domain protein, DegV family; Region: DegV; TIGR00762 1131462003034 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1131462003035 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1131462003036 active site 1 [active] 1131462003037 dimer interface [polypeptide binding]; other site 1131462003038 hexamer interface [polypeptide binding]; other site 1131462003039 active site 2 [active] 1131462003040 EcsC protein family; Region: EcsC; pfam12787 1131462003041 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1131462003042 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1131462003043 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1131462003044 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 1131462003045 [2Fe-2S] cluster binding site [ion binding]; other site 1131462003046 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1131462003047 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 1131462003048 active site 1131462003049 dimerization interface [polypeptide binding]; other site 1131462003050 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462003051 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462003052 metal binding site [ion binding]; metal-binding site 1131462003053 active site 1131462003054 I-site; other site 1131462003055 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 1131462003056 intersubunit interface [polypeptide binding]; other site 1131462003057 active site 1131462003058 Zn2+ binding site [ion binding]; other site 1131462003059 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1131462003060 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1131462003061 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1131462003062 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1131462003063 Spore germination protein; Region: Spore_permease; cl17796 1131462003064 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1131462003065 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1131462003066 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1131462003067 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1131462003068 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 1131462003069 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 1131462003070 FeS/SAM binding site; other site 1131462003071 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1131462003072 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 1131462003073 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 1131462003074 FeS/SAM binding site; other site 1131462003075 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1131462003076 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 1131462003077 GIY-YIG motif/motif A; other site 1131462003078 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1131462003079 CoenzymeA binding site [chemical binding]; other site 1131462003080 subunit interaction site [polypeptide binding]; other site 1131462003081 PHB binding site; other site 1131462003082 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1131462003083 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 1131462003084 metal binding site [ion binding]; metal-binding site 1131462003085 substrate binding pocket [chemical binding]; other site 1131462003086 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 1131462003087 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1131462003088 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1131462003089 acyl-activating enzyme (AAE) consensus motif; other site 1131462003090 putative AMP binding site [chemical binding]; other site 1131462003091 putative active site [active] 1131462003092 putative CoA binding site [chemical binding]; other site 1131462003093 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 1131462003094 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1131462003095 substrate binding site [chemical binding]; other site 1131462003096 oxyanion hole (OAH) forming residues; other site 1131462003097 trimer interface [polypeptide binding]; other site 1131462003098 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 1131462003099 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 1131462003100 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1131462003101 dimer interface [polypeptide binding]; other site 1131462003102 tetramer interface [polypeptide binding]; other site 1131462003103 PYR/PP interface [polypeptide binding]; other site 1131462003104 TPP binding site [chemical binding]; other site 1131462003105 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1131462003106 TPP-binding site; other site 1131462003107 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1131462003108 isocitrate dehydrogenase; Validated; Region: PRK08299 1131462003109 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 1131462003110 H+ Antiporter protein; Region: 2A0121; TIGR00900 1131462003111 putative substrate translocation pore; other site 1131462003112 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 1131462003113 GTPase RsgA; Reviewed; Region: PRK01889 1131462003114 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 1131462003115 RNA binding site [nucleotide binding]; other site 1131462003116 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1131462003117 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1131462003118 GTP/Mg2+ binding site [chemical binding]; other site 1131462003119 G4 box; other site 1131462003120 G5 box; other site 1131462003121 G1 box; other site 1131462003122 Switch I region; other site 1131462003123 G2 box; other site 1131462003124 G3 box; other site 1131462003125 Switch II region; other site 1131462003126 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1131462003127 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 1131462003128 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1131462003129 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 1131462003130 S-adenosylmethionine binding site [chemical binding]; other site 1131462003131 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 1131462003132 active site 1131462003133 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1131462003134 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1131462003135 putative metal binding site; other site 1131462003136 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 1131462003137 binding surface 1131462003138 TPR motif; other site 1131462003139 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 1131462003140 binding surface 1131462003141 TPR motif; other site 1131462003142 Disaggregatase related repeat; Region: Disaggr_repeat; pfam06848 1131462003143 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1131462003144 putative metal binding site; other site 1131462003145 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 1131462003146 binding surface 1131462003147 TPR motif; other site 1131462003148 TPR repeat; Region: TPR_11; pfam13414 1131462003149 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 1131462003150 binding surface 1131462003151 TPR motif; other site 1131462003152 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1131462003153 active site 1131462003154 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 1131462003155 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1131462003156 PAS domain; Region: PAS; smart00091 1131462003157 PAS fold; Region: PAS_4; pfam08448 1131462003158 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1131462003159 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 1131462003160 dimer interface [polypeptide binding]; other site 1131462003161 phosphorylation site [posttranslational modification] 1131462003162 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 1131462003163 Mg2+ binding site [ion binding]; other site 1131462003164 G-X-G motif; other site 1131462003165 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1131462003166 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 1131462003167 active site 1131462003168 phosphorylation site [posttranslational modification] 1131462003169 intermolecular recognition site; other site 1131462003170 dimerization interface [polypeptide binding]; other site 1131462003171 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1131462003172 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1131462003173 active site 1131462003174 tetramer interface; other site 1131462003175 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1131462003176 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1131462003177 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462003178 Walker A/P-loop; other site 1131462003179 ATP binding site [chemical binding]; other site 1131462003180 Q-loop/lid; other site 1131462003181 ABC transporter signature motif; other site 1131462003182 Walker B; other site 1131462003183 D-loop; other site 1131462003184 H-loop/switch region; other site 1131462003185 Helix-turn-helix domain; Region: HTH_38; pfam13936 1131462003186 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1131462003187 SynChlorMet cassette protein ScmC; Region: SCM_chp_ScmC; TIGR04249 1131462003188 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1131462003189 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 1131462003190 FeS/SAM binding site; other site 1131462003191 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 1131462003192 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1131462003193 Predicted integral membrane protein [Function unknown]; Region: COG5652 1131462003194 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1131462003195 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1131462003196 Nucleotide binding site [chemical binding]; other site 1131462003197 DTAP/Switch II; other site 1131462003198 Switch I; other site 1131462003199 Chain length determinant protein; Region: Wzz; cl15801 1131462003200 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1131462003201 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 1131462003202 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 1131462003203 Disaggregatase related; Region: Disaggr_assoc; pfam08480 1131462003204 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1131462003205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1131462003206 NAD(P) binding site [chemical binding]; other site 1131462003207 active site 1131462003208 F420H2 dehydrogenase subunit F; Provisional; Region: PRK09326 1131462003209 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 1131462003210 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1131462003211 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1131462003212 active site 1131462003213 nucleotide binding site [chemical binding]; other site 1131462003214 HIGH motif; other site 1131462003215 KMSKS motif; other site 1131462003216 LicD family; Region: LicD; cl01378 1131462003217 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1131462003218 putative ADP-binding pocket [chemical binding]; other site 1131462003219 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1131462003220 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 1131462003221 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 1131462003222 active site 1131462003223 motif I; other site 1131462003224 motif II; other site 1131462003225 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 1131462003226 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 1131462003227 Substrate binding site; other site 1131462003228 Mg++ binding site; other site 1131462003229 metal-binding site 1131462003230 Mg++ binding site; other site 1131462003231 metal-binding site 1131462003232 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 1131462003233 dimer interface [polypeptide binding]; other site 1131462003234 active site 1131462003235 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 1131462003236 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1131462003237 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 1131462003238 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1131462003239 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1131462003240 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1131462003241 NADP-binding site; other site 1131462003242 homotetramer interface [polypeptide binding]; other site 1131462003243 substrate binding site [chemical binding]; other site 1131462003244 homodimer interface [polypeptide binding]; other site 1131462003245 active site 1131462003246 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1131462003247 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1131462003248 NADP-binding site; other site 1131462003249 homotetramer interface [polypeptide binding]; other site 1131462003250 substrate binding site [chemical binding]; other site 1131462003251 homodimer interface [polypeptide binding]; other site 1131462003252 active site 1131462003253 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 1131462003254 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 1131462003255 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 1131462003256 active site 1131462003257 Cupin domain; Region: Cupin_2; cl17218 1131462003258 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1131462003259 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1131462003260 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1131462003261 NAD binding site [chemical binding]; other site 1131462003262 homodimer interface [polypeptide binding]; other site 1131462003263 active site 1131462003264 substrate binding site [chemical binding]; other site 1131462003265 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1131462003266 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 1131462003267 active site 1131462003268 substrate binding site [chemical binding]; other site 1131462003269 metal binding site [ion binding]; metal-binding site 1131462003270 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 1131462003271 catalytic residues [active] 1131462003272 SynChlorMet cassette protein ScmC; Region: SCM_chp_ScmC; TIGR04249 1131462003273 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 1131462003274 GeoRSP system radical SAM/SPASM protein; Region: GeoRSP_rSAM; TIGR04303 1131462003275 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 1131462003276 FeS/SAM binding site; other site 1131462003277 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 1131462003278 N terminal extension of bacteriophage endosialidase; Region: End_N_terminal; pfam12218 1131462003279 Protein of unknown function DUF86; Region: DUF86; cl01031 1131462003280 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1131462003281 active site 1131462003282 NTP binding site [chemical binding]; other site 1131462003283 metal binding triad [ion binding]; metal-binding site 1131462003284 antibiotic binding site [chemical binding]; other site 1131462003285 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 1131462003286 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 1131462003287 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 1131462003288 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 1131462003289 PAS domain; Region: PAS_9; pfam13426 1131462003290 putative active site [active] 1131462003291 heme pocket [chemical binding]; other site 1131462003292 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462003293 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462003294 metal binding site [ion binding]; metal-binding site 1131462003295 active site 1131462003296 I-site; other site 1131462003297 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1131462003298 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462003299 Zn2+ binding site [ion binding]; other site 1131462003300 Mg2+ binding site [ion binding]; other site 1131462003301 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1131462003302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 1131462003303 Sporulation and spore germination; Region: Germane; pfam10646 1131462003304 Immunoglobulin-like domain of bacterial spore germination; Region: Gmad2; pfam10648 1131462003305 Uncharacterized conserved protein [Function unknown]; Region: COG3937 1131462003306 ABC1 family; Region: ABC1; cl17513 1131462003307 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1131462003308 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1131462003309 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1131462003310 CO dehydrogenase/acetyl-CoA synthase gamma subunit (corrinoid Fe-S protein) [Energy production and conversion]; Region: CdhE; COG1456 1131462003311 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1131462003312 Domain of unknown function DUF21; Region: DUF21; pfam01595 1131462003313 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 1131462003314 Transporter associated domain; Region: CorC_HlyC; pfam03471 1131462003315 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 1131462003316 B12 binding domain; Region: B12-binding; pfam02310 1131462003317 B12 binding site [chemical binding]; other site 1131462003318 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 1131462003319 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462003320 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462003321 metal binding site [ion binding]; metal-binding site 1131462003322 active site 1131462003323 I-site; other site 1131462003324 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1131462003325 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1131462003326 Metal-binding active site; metal-binding site 1131462003327 AMP-binding domain protein; Validated; Region: PRK08315 1131462003328 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1131462003329 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1131462003330 acyl-activating enzyme (AAE) consensus motif; other site 1131462003331 acyl-activating enzyme (AAE) consensus motif; other site 1131462003332 putative AMP binding site [chemical binding]; other site 1131462003333 putative active site [active] 1131462003334 putative CoA binding site [chemical binding]; other site 1131462003335 CoA binding site [chemical binding]; other site 1131462003336 putative lipid kinase; Reviewed; Region: PRK13059 1131462003337 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1131462003338 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 1131462003339 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1131462003340 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1131462003341 active site 1131462003342 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1131462003343 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462003344 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462003345 metal binding site [ion binding]; metal-binding site 1131462003346 active site 1131462003347 I-site; other site 1131462003348 hybrid cluster protein; Provisional; Region: PRK05290 1131462003349 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 1131462003350 ACS interaction site; other site 1131462003351 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 1131462003352 ACS interaction site; other site 1131462003353 CODH interaction site; other site 1131462003354 metal cluster binding site [ion binding]; other site 1131462003355 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 1131462003356 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1131462003357 dinuclear metal binding motif [ion binding]; other site 1131462003358 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1131462003359 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 1131462003360 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 1131462003361 Flavoprotein; Region: Flavoprotein; pfam02441 1131462003362 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1131462003363 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1131462003364 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1131462003365 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1131462003366 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1131462003367 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1131462003368 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1131462003369 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1131462003370 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1131462003371 Walker A/P-loop; other site 1131462003372 ATP binding site [chemical binding]; other site 1131462003373 Q-loop/lid; other site 1131462003374 ABC transporter signature motif; other site 1131462003375 Walker B; other site 1131462003376 D-loop; other site 1131462003377 H-loop/switch region; other site 1131462003378 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1131462003379 Walker A/P-loop; other site 1131462003380 ATP binding site [chemical binding]; other site 1131462003381 Q-loop/lid; other site 1131462003382 ABC transporter signature motif; other site 1131462003383 Walker B; other site 1131462003384 D-loop; other site 1131462003385 H-loop/switch region; other site 1131462003386 Transposase IS200 like; Region: Y1_Tnp; cl00848 1131462003387 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1131462003388 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 1131462003389 ligand binding site [chemical binding]; other site 1131462003390 flexible hinge region; other site 1131462003391 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 1131462003392 putative switch regulator; other site 1131462003393 non-specific DNA interactions [nucleotide binding]; other site 1131462003394 DNA binding site [nucleotide binding] 1131462003395 sequence specific DNA binding site [nucleotide binding]; other site 1131462003396 putative cAMP binding site [chemical binding]; other site 1131462003397 FMN-binding domain; Region: FMN_bind; pfam04205 1131462003398 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1131462003399 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1131462003400 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462003401 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 1131462003402 Predicted transcriptional regulators [Transcription]; Region: COG1733 1131462003403 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1131462003404 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1131462003405 CmuA_CmuC_like: uncharacterized protein family similar to uroporphyrinogen decarboxylase (URO-D) and the methyltransferases CmuA and CmuC; Region: CmuA_CmuC_like; cd03308 1131462003406 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 1131462003407 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1131462003408 B12 binding site [chemical binding]; other site 1131462003409 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 1131462003410 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1131462003411 ligand binding site [chemical binding]; other site 1131462003412 flexible hinge region; other site 1131462003413 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 1131462003414 non-specific DNA interactions [nucleotide binding]; other site 1131462003415 DNA binding site [nucleotide binding] 1131462003416 sequence specific DNA binding site [nucleotide binding]; other site 1131462003417 putative cAMP binding site [chemical binding]; other site 1131462003418 FMN-binding domain; Region: FMN_bind; pfam04205 1131462003419 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1131462003420 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1131462003421 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462003422 reductive dehalogenase; Region: RDH; TIGR02486 1131462003423 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1131462003424 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 1131462003425 ligand binding site [chemical binding]; other site 1131462003426 flexible hinge region; other site 1131462003427 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 1131462003428 putative switch regulator; other site 1131462003429 non-specific DNA interactions [nucleotide binding]; other site 1131462003430 DNA binding site [nucleotide binding] 1131462003431 sequence specific DNA binding site [nucleotide binding]; other site 1131462003432 putative cAMP binding site [chemical binding]; other site 1131462003433 reductive dehalogenase; Region: RDH; TIGR02486 1131462003434 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462003435 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 1131462003436 VanZ like family; Region: VanZ; pfam04892 1131462003437 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 1131462003438 dimer interface [polypeptide binding]; other site 1131462003439 phosphorylation site [posttranslational modification] 1131462003440 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 1131462003441 ATP binding site [chemical binding]; other site 1131462003442 Mg2+ binding site [ion binding]; other site 1131462003443 G-X-G motif; other site 1131462003444 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1131462003445 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 1131462003446 active site 1131462003447 phosphorylation site [posttranslational modification] 1131462003448 intermolecular recognition site; other site 1131462003449 dimerization interface [polypeptide binding]; other site 1131462003450 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 1131462003451 DNA binding site [nucleotide binding] 1131462003452 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1131462003453 Predicted transcriptional regulators [Transcription]; Region: COG1695 1131462003454 Protein of unknown function (DUF1048); Region: DUF1048; pfam06304 1131462003455 Protein of unknown function (DUF1048); Region: DUF1048; pfam06304 1131462003456 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1131462003457 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462003458 Walker A/P-loop; other site 1131462003459 ATP binding site [chemical binding]; other site 1131462003460 Q-loop/lid; other site 1131462003461 ABC transporter signature motif; other site 1131462003462 Walker B; other site 1131462003463 D-loop; other site 1131462003464 H-loop/switch region; other site 1131462003465 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1131462003466 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1131462003467 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1131462003468 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 1131462003469 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1131462003470 substrate binding pocket [chemical binding]; other site 1131462003471 dimer interface [polypeptide binding]; other site 1131462003472 inhibitor binding site; inhibition site 1131462003473 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1131462003474 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1131462003475 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1131462003476 B12 binding site [chemical binding]; other site 1131462003477 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 1131462003478 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1131462003479 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1131462003480 DNA-binding site [nucleotide binding]; DNA binding site 1131462003481 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1131462003482 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1131462003483 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1131462003484 B12 binding site [chemical binding]; other site 1131462003485 DNA polymerase IV; Reviewed; Region: PRK03103 1131462003486 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1131462003487 active site 1131462003488 DNA binding site [nucleotide binding] 1131462003489 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1131462003490 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 1131462003491 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1131462003492 Transposase; Region: HTH_Tnp_1; pfam01527 1131462003493 putative transposase OrfB; Reviewed; Region: PHA02517 1131462003494 HTH-like domain; Region: HTH_21; pfam13276 1131462003495 Integrase core domain; Region: rve; pfam00665 1131462003496 Integrase core domain; Region: rve_3; pfam13683 1131462003497 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1131462003498 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 1131462003499 motif II; other site 1131462003500 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1131462003501 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1131462003502 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1131462003503 B12 binding site [chemical binding]; other site 1131462003504 Sensory domain found in PocR; Region: PocR; pfam10114 1131462003505 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1131462003506 Histidine kinase; Region: His_kinase; pfam06580 1131462003507 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1131462003508 Mg2+ binding site [ion binding]; other site 1131462003509 G-X-G motif; other site 1131462003510 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1131462003511 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 1131462003512 ligand binding site [chemical binding]; other site 1131462003513 flexible hinge region; other site 1131462003514 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1131462003515 ApbE family; Region: ApbE; pfam02424 1131462003516 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cl02206 1131462003517 FMN-binding domain; Region: FMN_bind; pfam04205 1131462003518 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1131462003519 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1131462003520 reductive dehalogenase; Region: RDH; TIGR02486 1131462003521 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462003522 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 1131462003523 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1131462003524 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 1131462003525 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1131462003526 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1131462003527 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1131462003528 active site 1131462003529 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1131462003530 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 1131462003531 Int/Topo IB signature motif; other site 1131462003532 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1131462003533 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 1131462003534 active site 1131462003535 DNA binding site [nucleotide binding] 1131462003536 Int/Topo IB signature motif; other site 1131462003537 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1131462003538 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 1131462003539 active site 1131462003540 DNA binding site [nucleotide binding] 1131462003541 Int/Topo IB signature motif; other site 1131462003542 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1131462003543 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1131462003544 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1131462003545 putative active site [active] 1131462003546 putative NTP binding site [chemical binding]; other site 1131462003547 putative nucleic acid binding site [nucleotide binding]; other site 1131462003548 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1131462003549 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1131462003550 putative active site [active] 1131462003551 putative NTP binding site [chemical binding]; other site 1131462003552 putative nucleic acid binding site [nucleotide binding]; other site 1131462003553 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1131462003554 active site 1131462003555 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1131462003556 putative transposase OrfB; Reviewed; Region: PHA02517 1131462003557 HTH-like domain; Region: HTH_21; pfam13276 1131462003558 Integrase core domain; Region: rve; pfam00665 1131462003559 Integrase core domain; Region: rve_3; pfam13683 1131462003560 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1131462003561 Transposase; Region: HTH_Tnp_1; pfam01527 1131462003562 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1131462003563 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1131462003564 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 1131462003565 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1131462003566 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1131462003567 Coenzyme A binding pocket [chemical binding]; other site 1131462003568 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1131462003569 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1131462003570 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1131462003571 dimerization interface [polypeptide binding]; other site 1131462003572 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1131462003573 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 1131462003574 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 1131462003575 active site 1131462003576 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 1131462003577 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 1131462003578 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1131462003579 HEAT repeats; Region: HEAT_2; pfam13646 1131462003580 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1131462003581 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1131462003582 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1131462003583 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; cl17802 1131462003584 DDE superfamily endonuclease; Region: DDE_5; cl17874 1131462003585 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1131462003586 HEAT-like repeat; Region: HEAT_EZ; pfam13513 1131462003587 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 1131462003588 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1131462003589 HEAT repeats; Region: HEAT_2; pfam13646 1131462003590 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1131462003591 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1131462003592 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1131462003593 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1131462003594 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 1131462003595 substrate binding pocket [chemical binding]; other site 1131462003596 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 1131462003597 B12 binding site [chemical binding]; other site 1131462003598 cobalt ligand [ion binding]; other site 1131462003599 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1131462003600 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1131462003601 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1131462003602 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1131462003603 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1131462003604 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 1131462003605 dimer interface [polypeptide binding]; other site 1131462003606 active site 1131462003607 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1131462003608 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1131462003609 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1131462003610 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1131462003611 Uncharacterized protein conserved in archaea (DUF2115); Region: DUF2115; cl01681 1131462003612 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1131462003613 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1131462003614 Coenzyme A binding pocket [chemical binding]; other site 1131462003615 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1131462003616 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 1131462003617 putative FMN binding site [chemical binding]; other site 1131462003618 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1131462003619 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1131462003620 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 1131462003621 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1131462003622 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1131462003623 active site 1131462003624 FMN binding site [chemical binding]; other site 1131462003625 substrate binding site [chemical binding]; other site 1131462003626 putative catalytic residues [active] 1131462003627 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 1131462003628 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1131462003629 Helix-turn-helix domain; Region: HTH_36; pfam13730 1131462003630 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 1131462003631 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 1131462003632 Walker A motif; other site 1131462003633 ATP binding site [chemical binding]; other site 1131462003634 Walker B motif; other site 1131462003635 CHC2 zinc finger; Region: zf-CHC2; cl17510 1131462003636 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1131462003637 Toprim-like; Region: Toprim_2; pfam13155 1131462003638 active site 1131462003639 metal binding site [ion binding]; metal-binding site 1131462003640 Sel1-like repeats; Region: SEL1; smart00671 1131462003641 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1131462003642 Sel1-like repeats; Region: SEL1; smart00671 1131462003643 Sel1-like repeats; Region: SEL1; smart00671 1131462003644 Sel1-like repeats; Region: SEL1; smart00671 1131462003645 Sel1-like repeats; Region: SEL1; smart00671 1131462003646 Sel1-like repeats; Region: SEL1; smart00671 1131462003647 Sel1-like repeats; Region: SEL1; smart00671 1131462003648 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 1131462003649 Fic family protein [Function unknown]; Region: COG3177 1131462003650 Fic/DOC family; Region: Fic; pfam02661 1131462003651 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1131462003652 Peptidase family M23; Region: Peptidase_M23; pfam01551 1131462003653 Protein of unknown function (DUF3849); Region: DUF3849; pfam12960 1131462003654 Protein of unknown function, DUF484; Region: DUF484; cl17449 1131462003655 AAA-like domain; Region: AAA_10; pfam12846 1131462003656 Domain of unknown function DUF87; Region: DUF87; pfam01935 1131462003657 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1131462003658 Fic/DOC family; Region: Fic; cl00960 1131462003659 HEPN domain; Region: HEPN; pfam05168 1131462003660 HEPN domain; Region: HEPN; pfam05168 1131462003661 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1131462003662 active site 1131462003663 NTP binding site [chemical binding]; other site 1131462003664 metal binding triad [ion binding]; metal-binding site 1131462003665 antibiotic binding site [chemical binding]; other site 1131462003666 Protein of unknown function (DUF3852); Region: DUF3852; pfam12963 1131462003667 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 1131462003668 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1131462003669 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 1131462003670 Walker A motif; other site 1131462003671 ATP binding site [chemical binding]; other site 1131462003672 Walker B motif; other site 1131462003673 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1131462003674 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 1131462003675 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1131462003676 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1131462003677 SpoVG; Region: SpoVG; pfam04026 1131462003678 SpoVG; Region: SpoVG; pfam04026 1131462003679 YodL-like; Region: YodL; pfam14191 1131462003680 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1131462003681 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1131462003682 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1131462003683 Antirestriction protein (ArdA); Region: ArdA; cl01953 1131462003684 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1131462003685 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 1131462003686 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 1131462003687 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1131462003688 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 1131462003689 Walker A motif; other site 1131462003690 ATP binding site [chemical binding]; other site 1131462003691 Walker B motif; other site 1131462003692 AAA domain; Region: AAA_31; pfam13614 1131462003693 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 1131462003694 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1131462003695 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1131462003696 Antirestriction protein (ArdA); Region: ArdA; cl01953 1131462003697 Antirestriction protein (ArdA); Region: ArdA; cl01953 1131462003698 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1131462003699 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1131462003700 catalytic residues [active] 1131462003701 catalytic nucleophile [active] 1131462003702 Recombinase; Region: Recombinase; pfam07508 1131462003703 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1131462003704 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 1131462003705 transcription termination factor Rho; Provisional; Region: PRK12678 1131462003706 P22 coat protein - gene protein 5; Region: P22_CoatProtein; pfam11651 1131462003707 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 1131462003708 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 1131462003709 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 1131462003710 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 1131462003711 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1131462003712 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 1131462003713 active site 1131462003714 DNA binding site [nucleotide binding] 1131462003715 Int/Topo IB signature motif; other site 1131462003716 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1131462003717 ParB-like nuclease domain; Region: ParBc; pfam02195 1131462003718 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1131462003719 DNA methylase; Region: N6_N4_Mtase; pfam01555 1131462003720 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 1131462003721 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 1131462003722 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1131462003723 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1131462003724 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 1131462003725 ATP binding site [chemical binding]; other site 1131462003726 putative Mg++ binding site [ion binding]; other site 1131462003727 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1131462003728 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1131462003729 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1131462003730 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1131462003731 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1131462003732 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1131462003733 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1131462003734 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1131462003735 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1131462003736 TRAM domain; Region: TRAM; cl01282 1131462003737 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1131462003738 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 1131462003739 S-adenosylmethionine binding site [chemical binding]; other site 1131462003740 CAAX protease self-immunity; Region: Abi; pfam02517 1131462003741 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 1131462003742 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 1131462003743 active site 1131462003744 catalytic residues [active] 1131462003745 metal binding site [ion binding]; metal-binding site 1131462003746 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1131462003747 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1131462003748 GatB domain; Region: GatB_Yqey; smart00845 1131462003749 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1131462003750 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1131462003751 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1131462003752 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1131462003753 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 1131462003754 nucleotide binding pocket [chemical binding]; other site 1131462003755 K-X-D-G motif; other site 1131462003756 catalytic site [active] 1131462003757 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1131462003758 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1131462003759 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 1131462003760 Dimer interface [polypeptide binding]; other site 1131462003761 BRCT sequence motif; other site 1131462003762 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1131462003763 Part of AAA domain; Region: AAA_19; pfam13245 1131462003764 Family description; Region: UvrD_C_2; pfam13538 1131462003765 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in uncharacterized protein from Archaeoglobus fulgidus (Af0060) and its bacterial homologs; Region: NTP-PPase_Af0060_like; cd11533 1131462003766 homodimer interface [polypeptide binding]; other site 1131462003767 metal binding site [ion binding]; metal-binding site 1131462003768 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1131462003769 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1131462003770 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 1131462003771 metal binding site [ion binding]; metal-binding site 1131462003772 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 1131462003773 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1131462003774 substrate binding site [chemical binding]; other site 1131462003775 glutamase interaction surface [polypeptide binding]; other site 1131462003776 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 1131462003777 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1131462003778 catalytic residues [active] 1131462003779 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1131462003780 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1131462003781 putative active site [active] 1131462003782 oxyanion strand; other site 1131462003783 catalytic triad [active] 1131462003784 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1131462003785 putative active site pocket [active] 1131462003786 4-fold oligomerization interface [polypeptide binding]; other site 1131462003787 metal binding residues [ion binding]; metal-binding site 1131462003788 3-fold/trimer interface [polypeptide binding]; other site 1131462003789 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 1131462003790 histidinol dehydrogenase; Region: hisD; TIGR00069 1131462003791 NAD binding site [chemical binding]; other site 1131462003792 dimerization interface [polypeptide binding]; other site 1131462003793 product binding site; other site 1131462003794 substrate binding site [chemical binding]; other site 1131462003795 zinc binding site [ion binding]; other site 1131462003796 catalytic residues [active] 1131462003797 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1131462003798 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1131462003799 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 1131462003800 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 1131462003801 dimer interface [polypeptide binding]; other site 1131462003802 motif 1; other site 1131462003803 active site 1131462003804 motif 2; other site 1131462003805 motif 3; other site 1131462003806 Trp repressor protein; Region: Trp_repressor; cl17266 1131462003807 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1131462003808 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 1131462003809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462003810 homodimer interface [polypeptide binding]; other site 1131462003811 catalytic residue [active] 1131462003812 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 1131462003813 ArsC family; Region: ArsC; pfam03960 1131462003814 catalytic residue [active] 1131462003815 hypothetical protein; Provisional; Region: PRK13665 1131462003816 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 1131462003817 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 1131462003818 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1131462003819 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 1131462003820 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1131462003821 catalytic residue [active] 1131462003822 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1131462003823 dinuclear metal binding motif [ion binding]; other site 1131462003824 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 1131462003825 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 1131462003826 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 1131462003827 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1131462003828 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1131462003829 acyl-activating enzyme (AAE) consensus motif; other site 1131462003830 AMP binding site [chemical binding]; other site 1131462003831 active site 1131462003832 CoA binding site [chemical binding]; other site 1131462003833 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1131462003834 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1131462003835 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1131462003836 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1131462003837 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1131462003838 Flavoprotein; Region: Flavoprotein; pfam02441 1131462003839 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1131462003840 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1131462003841 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1131462003842 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 1131462003843 catalytic site [active] 1131462003844 G-X2-G-X-G-K; other site 1131462003845 hypothetical protein; Provisional; Region: PRK04323 1131462003846 hypothetical protein; Provisional; Region: PRK11820 1131462003847 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1131462003848 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1131462003849 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 1131462003850 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 1131462003851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462003852 homodimer interface [polypeptide binding]; other site 1131462003853 catalytic residue [active] 1131462003854 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1131462003855 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1131462003856 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1131462003857 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1131462003858 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1131462003859 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1131462003860 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1131462003861 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 1131462003862 motif II; other site 1131462003863 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1131462003864 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1131462003865 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1131462003866 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1131462003867 active site 1131462003868 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 1131462003869 PAS domain S-box; Region: sensory_box; TIGR00229 1131462003870 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 1131462003871 putative active site [active] 1131462003872 heme pocket [chemical binding]; other site 1131462003873 GAF domain; Region: GAF; pfam01590 1131462003874 GAF domain; Region: GAF_2; pfam13185 1131462003875 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462003876 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462003877 metal binding site [ion binding]; metal-binding site 1131462003878 active site 1131462003879 I-site; other site 1131462003880 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462003881 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462003882 metal binding site [ion binding]; metal-binding site 1131462003883 active site 1131462003884 I-site; other site 1131462003885 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 1131462003886 active site 1131462003887 dimer interface [polypeptide binding]; other site 1131462003888 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1131462003889 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 1131462003890 heterodimer interface [polypeptide binding]; other site 1131462003891 active site 1131462003892 FMN binding site [chemical binding]; other site 1131462003893 homodimer interface [polypeptide binding]; other site 1131462003894 substrate binding site [chemical binding]; other site 1131462003895 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1131462003896 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 1131462003897 FAD binding pocket [chemical binding]; other site 1131462003898 FAD binding motif [chemical binding]; other site 1131462003899 phosphate binding motif [ion binding]; other site 1131462003900 beta-alpha-beta structure motif; other site 1131462003901 NAD binding pocket [chemical binding]; other site 1131462003902 Iron coordination center [ion binding]; other site 1131462003903 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1131462003904 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1131462003905 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1131462003906 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1131462003907 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1131462003908 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1131462003909 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 1131462003910 IMP binding site; other site 1131462003911 dimer interface [polypeptide binding]; other site 1131462003912 interdomain contacts; other site 1131462003913 partial ornithine binding site; other site 1131462003914 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1131462003915 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1131462003916 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1131462003917 catalytic site [active] 1131462003918 subunit interface [polypeptide binding]; other site 1131462003919 dihydroorotase; Validated; Region: pyrC; PRK09357 1131462003920 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 1131462003921 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 1131462003922 active site 1131462003923 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1131462003924 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1131462003925 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1131462003926 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1131462003927 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1131462003928 active site 1131462003929 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1131462003930 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 1131462003931 RNA binding surface [nucleotide binding]; other site 1131462003932 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1131462003933 active site 1131462003934 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1131462003935 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 1131462003936 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1131462003937 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1131462003938 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1131462003939 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1131462003940 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1131462003941 catalytic residue [active] 1131462003942 putative membrane fusion protein; Region: TIGR02828 1131462003943 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1131462003944 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1131462003945 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 1131462003946 sporulation sigma factor SigG; Reviewed; Region: PRK08215 1131462003947 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1131462003948 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1131462003949 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 1131462003950 DNA binding residues [nucleotide binding] 1131462003951 sporulation sigma factor SigE; Reviewed; Region: PRK08301 1131462003952 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1131462003953 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 1131462003954 DNA binding residues [nucleotide binding] 1131462003955 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 1131462003956 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 1131462003957 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1131462003958 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1131462003959 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1131462003960 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1131462003961 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1131462003962 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1131462003963 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1131462003964 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 1131462003965 cell division protein FtsZ; Validated; Region: PRK09330 1131462003966 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 1131462003967 nucleotide binding site [chemical binding]; other site 1131462003968 SulA interaction site; other site 1131462003969 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 1131462003970 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1131462003971 Cell division protein FtsQ; Region: FtsQ; pfam03799 1131462003972 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1131462003973 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 1131462003974 hinge; other site 1131462003975 active site 1131462003976 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1131462003977 FAD binding domain; Region: FAD_binding_4; pfam01565 1131462003978 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1131462003979 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1131462003980 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 1131462003981 active site 1131462003982 homodimer interface [polypeptide binding]; other site 1131462003983 cell division protein FtsW; Region: ftsW; TIGR02614 1131462003984 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 1131462003985 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1131462003986 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1131462003987 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1131462003988 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 1131462003989 Mg++ binding site [ion binding]; other site 1131462003990 putative catalytic motif [active] 1131462003991 putative substrate binding site [chemical binding]; other site 1131462003992 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1131462003993 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1131462003994 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1131462003995 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1131462003996 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1131462003997 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1131462003998 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1131462003999 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1131462004000 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 1131462004001 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1131462004002 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1131462004003 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 1131462004004 Septum formation initiator; Region: DivIC; cl17659 1131462004005 MraW methylase family; Region: Methyltransf_5; pfam01795 1131462004006 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1131462004007 cell division protein MraZ; Reviewed; Region: PRK00326 1131462004008 MraZ protein; Region: MraZ; pfam02381 1131462004009 MraZ protein; Region: MraZ; pfam02381 1131462004010 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1131462004011 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1131462004012 active site 1131462004013 nucleophile elbow; other site 1131462004014 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 1131462004015 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1131462004016 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1131462004017 metal binding site 2 [ion binding]; metal-binding site 1131462004018 putative DNA binding helix; other site 1131462004019 metal binding site 1 [ion binding]; metal-binding site 1131462004020 dimer interface [polypeptide binding]; other site 1131462004021 structural Zn2+ binding site [ion binding]; other site 1131462004022 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1131462004023 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1131462004024 histidinol-phosphatase; Provisional; Region: PRK07328 1131462004025 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 1131462004026 dimer interface [polypeptide binding]; other site 1131462004027 active site 1131462004028 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1131462004029 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1131462004030 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 1131462004031 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1131462004032 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1131462004033 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1131462004034 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1131462004035 selenophosphate synthetase; Provisional; Region: PRK00943 1131462004036 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1131462004037 dimerization interface [polypeptide binding]; other site 1131462004038 putative ATP binding site [chemical binding]; other site 1131462004039 selenocysteine synthase; Provisional; Region: PRK04311 1131462004040 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1131462004041 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1131462004042 catalytic residue [active] 1131462004043 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 1131462004044 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1131462004045 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 1131462004046 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1131462004047 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 1131462004048 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1131462004049 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 1131462004050 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1131462004051 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1131462004052 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 1131462004053 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1131462004054 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1131462004055 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1131462004056 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 1131462004057 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1131462004058 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 1131462004059 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1131462004060 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1131462004061 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 1131462004062 DNA binding residues [nucleotide binding] 1131462004063 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 1131462004064 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 1131462004065 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1131462004066 CheC-like family; Region: CheC; pfam04509 1131462004067 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1131462004068 CheC-like family; Region: CheC; pfam04509 1131462004069 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1131462004070 Flagellar protein YcgR; Region: YcgR_2; pfam12945 1131462004071 PilZ domain; Region: PilZ; pfam07238 1131462004072 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1131462004073 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 1131462004074 P-loop; other site 1131462004075 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1131462004076 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 1131462004077 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1131462004078 FHIPEP family; Region: FHIPEP; pfam00771 1131462004079 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1131462004080 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1131462004081 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1131462004082 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1131462004083 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1131462004084 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 1131462004085 Response regulator receiver domain; Region: Response_reg; pfam00072 1131462004086 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 1131462004087 active site 1131462004088 phosphorylation site [posttranslational modification] 1131462004089 intermolecular recognition site; other site 1131462004090 dimerization interface [polypeptide binding]; other site 1131462004091 flagellar motor switch protein; Validated; Region: PRK08119 1131462004092 CheC-like family; Region: CheC; pfam04509 1131462004093 flagellar motor switch protein FliN; Region: fliN; TIGR02480 1131462004094 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1131462004095 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1131462004096 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1131462004097 Flagellar protein (FlbD); Region: FlbD; pfam06289 1131462004098 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 1131462004099 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1131462004100 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 1131462004101 Walker A motif/ATP binding site; other site 1131462004102 Walker B motif; other site 1131462004103 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1131462004104 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 1131462004105 Flagellar assembly protein FliH; Region: FliH; pfam02108 1131462004106 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1131462004107 FliG C-terminal domain; Region: FliG_C; pfam01706 1131462004108 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1131462004109 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1131462004110 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1131462004111 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 1131462004112 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1131462004113 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1131462004114 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1131462004115 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 1131462004116 active site 1131462004117 phosphorylation site [posttranslational modification] 1131462004118 intermolecular recognition site; other site 1131462004119 dimerization interface [polypeptide binding]; other site 1131462004120 CheB methylesterase; Region: CheB_methylest; pfam01339 1131462004121 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 1131462004122 putative CheA interaction surface; other site 1131462004123 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1131462004124 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 1131462004125 putative binding surface; other site 1131462004126 active site 1131462004127 P2 response regulator binding domain; Region: P2; pfam07194 1131462004128 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1131462004129 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 1131462004130 ATP binding site [chemical binding]; other site 1131462004131 Mg2+ binding site [ion binding]; other site 1131462004132 G-X-G motif; other site 1131462004133 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 1131462004134 Flagellar protein FliS; Region: FliS; cl00654 1131462004135 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1131462004136 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1131462004137 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1131462004138 FlaG protein; Region: FlaG; pfam03646 1131462004139 flagellin; Provisional; Region: PRK12804 1131462004140 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1131462004141 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1131462004142 flagellin; Provisional; Region: PRK12804 1131462004143 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1131462004144 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1131462004145 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1131462004146 Interdomain contacts; other site 1131462004147 Cytokine receptor motif; other site 1131462004148 Helix-turn-helix domain; Region: HTH_38; pfam13936 1131462004149 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1131462004150 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 1131462004151 active site 1131462004152 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 1131462004153 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1131462004154 active site 1131462004155 catalytic tetrad [active] 1131462004156 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1131462004157 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 1131462004158 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1131462004159 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1131462004160 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1131462004161 PYR/PP interface [polypeptide binding]; other site 1131462004162 dimer interface [polypeptide binding]; other site 1131462004163 TPP binding site [chemical binding]; other site 1131462004164 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1131462004165 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1131462004166 TPP-binding site [chemical binding]; other site 1131462004167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1131462004168 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1131462004169 NAD(P) binding site [chemical binding]; other site 1131462004170 active site 1131462004171 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1131462004172 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1131462004173 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1131462004174 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 1131462004175 PYR/PP interface [polypeptide binding]; other site 1131462004176 dimer interface [polypeptide binding]; other site 1131462004177 TPP binding site [chemical binding]; other site 1131462004178 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1131462004179 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 1131462004180 TPP-binding site [chemical binding]; other site 1131462004181 dimer interface [polypeptide binding]; other site 1131462004182 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 1131462004183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1131462004184 NAD(P) binding site [chemical binding]; other site 1131462004185 active site 1131462004186 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1131462004187 extended (e) SDRs; Region: SDR_e; cd08946 1131462004188 NAD(P) binding site [chemical binding]; other site 1131462004189 active site 1131462004190 substrate binding site [chemical binding]; other site 1131462004191 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 1131462004192 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 1131462004193 substrate binding site; other site 1131462004194 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1131462004195 putative metal binding site; other site 1131462004196 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 1131462004197 TPR motif; other site 1131462004198 binding surface 1131462004199 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1131462004200 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1131462004201 putative metal binding site; other site 1131462004202 Global regulator protein family; Region: CsrA; pfam02599 1131462004203 FliW protein; Region: FliW; pfam02623 1131462004204 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 1131462004205 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1131462004206 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1131462004207 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 1131462004208 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1131462004209 FlgN protein; Region: FlgN; pfam05130 1131462004210 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1131462004211 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1131462004212 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1131462004213 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 1131462004214 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1131462004215 ligand binding site [chemical binding]; other site 1131462004216 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1131462004217 Peptidase family M28; Region: Peptidase_M28; pfam04389 1131462004218 metal binding site [ion binding]; metal-binding site 1131462004219 Protein of unknown function (DUF327); Region: DUF327; pfam03885 1131462004220 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1131462004221 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1131462004222 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1131462004223 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1131462004224 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1131462004225 NAD binding site [chemical binding]; other site 1131462004226 substrate binding site [chemical binding]; other site 1131462004227 homodimer interface [polypeptide binding]; other site 1131462004228 active site 1131462004229 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 1131462004230 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 1131462004231 substrate binding site; other site 1131462004232 metal-binding site 1131462004233 Oligomer interface; other site 1131462004234 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1131462004235 putative trimer interface [polypeptide binding]; other site 1131462004236 putative CoA binding site [chemical binding]; other site 1131462004237 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1131462004238 active site 1131462004239 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 1131462004240 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1131462004241 inhibitor-cofactor binding pocket; inhibition site 1131462004242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462004243 catalytic residue [active] 1131462004244 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1131462004245 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1131462004246 putative trimer interface [polypeptide binding]; other site 1131462004247 putative CoA binding site [chemical binding]; other site 1131462004248 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1131462004249 active site 1131462004250 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1131462004251 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 1131462004252 transmembrane helices; other site 1131462004253 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 1131462004254 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 1131462004255 catalytic loop [active] 1131462004256 iron binding site [ion binding]; other site 1131462004257 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1131462004258 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1131462004259 4Fe-4S binding domain; Region: Fer4; pfam00037 1131462004260 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1131462004261 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1131462004262 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1131462004263 SLBB domain; Region: SLBB; pfam10531 1131462004264 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1131462004265 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1131462004266 dimer interface [polypeptide binding]; other site 1131462004267 [2Fe-2S] cluster binding site [ion binding]; other site 1131462004268 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1131462004269 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 1131462004270 putative dimer interface [polypeptide binding]; other site 1131462004271 [2Fe-2S] cluster binding site [ion binding]; other site 1131462004272 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 1131462004273 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1131462004274 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1131462004275 GMP synthase; Reviewed; Region: guaA; PRK00074 1131462004276 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1131462004277 AMP/PPi binding site [chemical binding]; other site 1131462004278 candidate oxyanion hole; other site 1131462004279 catalytic triad [active] 1131462004280 potential glutamine specificity residues [chemical binding]; other site 1131462004281 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 1131462004282 ATP Binding subdomain [chemical binding]; other site 1131462004283 Ligand Binding sites [chemical binding]; other site 1131462004284 Dimerization subdomain; other site 1131462004285 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1131462004286 active site 1131462004287 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1131462004288 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 1131462004289 ring oligomerisation interface [polypeptide binding]; other site 1131462004290 ATP/Mg binding site [chemical binding]; other site 1131462004291 stacking interactions; other site 1131462004292 hinge regions; other site 1131462004293 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 1131462004294 oligomerisation interface [polypeptide binding]; other site 1131462004295 mobile loop; other site 1131462004296 roof hairpin; other site 1131462004297 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1131462004298 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1131462004299 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1131462004300 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1131462004301 GTP binding site; other site 1131462004302 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 1131462004303 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1131462004304 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1131462004305 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1131462004306 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 1131462004307 active site residue [active] 1131462004308 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 1131462004309 CPxP motif; other site 1131462004310 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 1131462004311 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 1131462004312 dimerization interface [polypeptide binding]; other site 1131462004313 putative DNA binding site [nucleotide binding]; other site 1131462004314 putative Zn2+ binding site [ion binding]; other site 1131462004315 EDD domain protein, DegV family; Region: DegV; TIGR00762 1131462004316 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1131462004317 MarR family; Region: MarR_2; pfam12802 1131462004318 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1131462004319 LabA_like proteins; Region: LabA_like; cd06167 1131462004320 putative metal binding site [ion binding]; other site 1131462004321 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 1131462004322 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1131462004323 catalytic loop [active] 1131462004324 iron binding site [ion binding]; other site 1131462004325 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1131462004326 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 1131462004327 [4Fe-4S] binding site [ion binding]; other site 1131462004328 molybdopterin cofactor binding site; other site 1131462004329 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 1131462004330 molybdopterin cofactor binding site; other site 1131462004331 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1131462004332 dimer interface [polypeptide binding]; other site 1131462004333 [2Fe-2S] cluster binding site [ion binding]; other site 1131462004334 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1131462004335 SLBB domain; Region: SLBB; pfam10531 1131462004336 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1131462004337 4Fe-4S binding domain; Region: Fer4; pfam00037 1131462004338 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1131462004339 4Fe-4S binding domain; Region: Fer4; pfam00037 1131462004340 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1131462004341 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 1131462004342 putative dimer interface [polypeptide binding]; other site 1131462004343 [2Fe-2S] cluster binding site [ion binding]; other site 1131462004344 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1131462004345 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1131462004346 UGMP family protein; Validated; Region: PRK09604 1131462004347 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1131462004348 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1131462004349 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1131462004350 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1131462004351 Coenzyme A binding pocket [chemical binding]; other site 1131462004352 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1131462004353 Glycoprotease family; Region: Peptidase_M22; pfam00814 1131462004354 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1131462004355 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1131462004356 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 1131462004357 active site 1131462004358 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1131462004359 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1131462004360 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1131462004361 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1131462004362 RNA binding site [nucleotide binding]; other site 1131462004363 PemK-like protein; Region: PemK; pfam02452 1131462004364 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 1131462004365 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1131462004366 catalytic triad [active] 1131462004367 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1131462004368 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1131462004369 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1131462004370 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1131462004371 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 1131462004372 trimer interface [polypeptide binding]; other site 1131462004373 putative metal binding site [ion binding]; other site 1131462004374 MOSC domain; Region: MOSC; pfam03473 1131462004375 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 1131462004376 Walker A motif; other site 1131462004377 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 1131462004378 MPT binding site; other site 1131462004379 trimer interface [polypeptide binding]; other site 1131462004380 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 1131462004381 trimer interface [polypeptide binding]; other site 1131462004382 dimer interface [polypeptide binding]; other site 1131462004383 putative active site [active] 1131462004384 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1131462004385 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 1131462004386 FeS/SAM binding site; other site 1131462004387 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1131462004388 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 1131462004389 putative MPT binding site; other site 1131462004390 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1131462004391 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 1131462004392 dimer interface [polypeptide binding]; other site 1131462004393 putative functional site; other site 1131462004394 putative MPT binding site; other site 1131462004395 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1131462004396 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1131462004397 CoA binding domain; Region: CoA_binding; pfam02629 1131462004398 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1131462004399 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 1131462004400 putative dimer interface [polypeptide binding]; other site 1131462004401 [2Fe-2S] cluster binding site [ion binding]; other site 1131462004402 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1131462004403 SLBB domain; Region: SLBB; pfam10531 1131462004404 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1131462004405 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 1131462004406 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 1131462004407 catalytic loop [active] 1131462004408 iron binding site [ion binding]; other site 1131462004409 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1131462004410 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1131462004411 4Fe-4S binding domain; Region: Fer4; pfam00037 1131462004412 4Fe-4S binding domain; Region: Fer4; pfam00037 1131462004413 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1131462004414 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1131462004415 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1131462004416 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1131462004417 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1131462004418 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1131462004419 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1131462004420 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462004421 Zn2+ binding site [ion binding]; other site 1131462004422 Mg2+ binding site [ion binding]; other site 1131462004423 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 1131462004424 dimerization interface [polypeptide binding]; other site 1131462004425 putative DNA binding site [nucleotide binding]; other site 1131462004426 putative Zn2+ binding site [ion binding]; other site 1131462004427 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 1131462004428 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1131462004429 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1131462004430 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1131462004431 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1131462004432 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 1131462004433 active site 1131462004434 dimer interface [polypeptide binding]; other site 1131462004435 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1131462004436 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 1131462004437 active site 1131462004438 FMN binding site [chemical binding]; other site 1131462004439 substrate binding site [chemical binding]; other site 1131462004440 3Fe-4S cluster binding site [ion binding]; other site 1131462004441 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1131462004442 domain interface; other site 1131462004443 glutamate dehydrogenase; Provisional; Region: PRK09414 1131462004444 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1131462004445 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1131462004446 NAD(P) binding site [chemical binding]; other site 1131462004447 alanine racemase; Reviewed; Region: alr; PRK00053 1131462004448 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1131462004449 active site 1131462004450 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1131462004451 dimer interface [polypeptide binding]; other site 1131462004452 substrate binding site [chemical binding]; other site 1131462004453 catalytic residues [active] 1131462004454 putative carbohydrate kinase; Provisional; Region: PRK10565 1131462004455 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1131462004456 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 1131462004457 putative substrate binding site [chemical binding]; other site 1131462004458 putative ATP binding site [chemical binding]; other site 1131462004459 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1131462004460 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1131462004461 Histidine kinase; Region: His_kinase; pfam06580 1131462004462 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 1131462004463 ATP binding site [chemical binding]; other site 1131462004464 Mg2+ binding site [ion binding]; other site 1131462004465 G-X-G motif; other site 1131462004466 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1131462004467 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1131462004468 DNA-binding site [nucleotide binding]; DNA binding site 1131462004469 TrkA-C domain; Region: TrkA_C; pfam02080 1131462004470 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1131462004471 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 1131462004472 FeS/SAM binding site; other site 1131462004473 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 1131462004474 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1131462004475 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1131462004476 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1131462004477 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1131462004478 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1131462004479 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 1131462004480 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 1131462004481 FeS/SAM binding site; other site 1131462004482 hypothetical protein; Provisional; Region: PRK03881 1131462004483 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 1131462004484 AMMECR1; Region: AMMECR1; cl00911 1131462004485 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462004486 reductive dehalogenase; Region: RDH; TIGR02486 1131462004487 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1131462004488 FMN-binding domain; Region: FMN_bind; pfam04205 1131462004489 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1131462004490 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1131462004491 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462004492 reductive dehalogenase; Region: RDH; TIGR02486 1131462004493 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1131462004494 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 1131462004495 ligand binding site [chemical binding]; other site 1131462004496 flexible hinge region; other site 1131462004497 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 1131462004498 non-specific DNA interactions [nucleotide binding]; other site 1131462004499 DNA binding site [nucleotide binding] 1131462004500 sequence specific DNA binding site [nucleotide binding]; other site 1131462004501 putative cAMP binding site [chemical binding]; other site 1131462004502 Transposase domain (DUF772); Region: DUF772; pfam05598 1131462004503 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1131462004504 Integrase core domain; Region: rve_3; pfam13683 1131462004505 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 1131462004506 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 1131462004507 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1131462004508 hypothetical protein; Provisional; Region: PRK04164 1131462004509 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1131462004510 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 1131462004511 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 1131462004512 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1131462004513 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1131462004514 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 1131462004515 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 1131462004516 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 1131462004517 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1131462004518 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 1131462004519 active site 1131462004520 catalytic triad [active] 1131462004521 oxyanion hole [active] 1131462004522 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1131462004523 putative active site [active] 1131462004524 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1131462004525 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1131462004526 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 1131462004527 Uncharacterized conserved protein [Function unknown]; Region: COG5646 1131462004528 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1131462004529 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462004530 Zn2+ binding site [ion binding]; other site 1131462004531 Mg2+ binding site [ion binding]; other site 1131462004532 CoA binding domain; Region: CoA_binding_2; pfam13380 1131462004533 putative transposase OrfB; Reviewed; Region: PHA02517 1131462004534 HTH-like domain; Region: HTH_21; pfam13276 1131462004535 Integrase core domain; Region: rve; pfam00665 1131462004536 Integrase core domain; Region: rve_3; pfam13683 1131462004537 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1131462004538 Transposase; Region: HTH_Tnp_1; cl17663 1131462004539 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1131462004540 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1131462004541 DNA binding residues [nucleotide binding] 1131462004542 dimer interface [polypeptide binding]; other site 1131462004543 Transposase domain (DUF772); Region: DUF772; pfam05598 1131462004544 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1131462004545 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1131462004546 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1131462004547 putative active site [active] 1131462004548 putative NTP binding site [chemical binding]; other site 1131462004549 putative nucleic acid binding site [nucleotide binding]; other site 1131462004550 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1131462004551 Divergent AAA domain; Region: AAA_4; pfam04326 1131462004552 Domain of unknown function (DUF4362); Region: DUF4362; pfam14275 1131462004553 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1131462004554 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1131462004555 putative active site [active] 1131462004556 putative NTP binding site [chemical binding]; other site 1131462004557 putative nucleic acid binding site [nucleotide binding]; other site 1131462004558 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1131462004559 SprT-like family; Region: SprT-like; pfam10263 1131462004560 SprT homologues; Region: SprT; cl01182 1131462004561 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 1131462004562 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 1131462004563 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 1131462004564 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 1131462004565 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 1131462004566 FeS/SAM binding site; other site 1131462004567 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 1131462004568 ATP cone domain; Region: ATP-cone; pfam03477 1131462004569 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1131462004570 effector binding site; other site 1131462004571 active site 1131462004572 Zn binding site [ion binding]; other site 1131462004573 glycine loop; other site 1131462004574 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1131462004575 ATP cone domain; Region: ATP-cone; pfam03477 1131462004576 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1131462004577 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 1131462004578 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 1131462004579 substrate binding pocket [chemical binding]; other site 1131462004580 dimer interface [polypeptide binding]; other site 1131462004581 inhibitor binding site; inhibition site 1131462004582 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 1131462004583 B12 binding site [chemical binding]; other site 1131462004584 cobalt ligand [ion binding]; other site 1131462004585 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1131462004586 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1131462004587 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 1131462004588 active site 1131462004589 phosphorylation site [posttranslational modification] 1131462004590 intermolecular recognition site; other site 1131462004591 dimerization interface [polypeptide binding]; other site 1131462004592 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 1131462004593 DNA binding site [nucleotide binding] 1131462004594 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1131462004595 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 1131462004596 dimerization interface [polypeptide binding]; other site 1131462004597 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 1131462004598 dimer interface [polypeptide binding]; other site 1131462004599 phosphorylation site [posttranslational modification] 1131462004600 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 1131462004601 ATP binding site [chemical binding]; other site 1131462004602 Mg2+ binding site [ion binding]; other site 1131462004603 G-X-G motif; other site 1131462004604 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1131462004605 heat shock protein 90; Provisional; Region: PRK05218 1131462004606 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 1131462004607 ATP binding site [chemical binding]; other site 1131462004608 Mg2+ binding site [ion binding]; other site 1131462004609 G-X-G motif; other site 1131462004610 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1131462004611 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 1131462004612 FeoC like transcriptional regulator; Region: FeoC; cl17677 1131462004613 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1131462004614 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1131462004615 G1 box; other site 1131462004616 GTP/Mg2+ binding site [chemical binding]; other site 1131462004617 Switch I region; other site 1131462004618 G2 box; other site 1131462004619 G3 box; other site 1131462004620 Switch II region; other site 1131462004621 G4 box; other site 1131462004622 G5 box; other site 1131462004623 Nucleoside recognition; Region: Gate; pfam07670 1131462004624 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1131462004625 Nucleoside recognition; Region: Gate; pfam07670 1131462004626 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1131462004627 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1131462004628 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 1131462004629 glutamate racemase; Provisional; Region: PRK00865 1131462004630 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 1131462004631 2-isopropylmalate synthase; Validated; Region: PRK00915 1131462004632 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1131462004633 active site 1131462004634 catalytic residues [active] 1131462004635 metal binding site [ion binding]; metal-binding site 1131462004636 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1131462004637 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1131462004638 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 1131462004639 catalytic residue [active] 1131462004640 putative FPP diphosphate binding site; other site 1131462004641 putative FPP binding hydrophobic cleft; other site 1131462004642 dimer interface [polypeptide binding]; other site 1131462004643 putative IPP diphosphate binding site; other site 1131462004644 CHAP domain; Region: CHAP; pfam05257 1131462004645 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1131462004646 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1131462004647 G1 box; other site 1131462004648 putative GEF interaction site [polypeptide binding]; other site 1131462004649 GTP/Mg2+ binding site [chemical binding]; other site 1131462004650 Switch I region; other site 1131462004651 G2 box; other site 1131462004652 G3 box; other site 1131462004653 Switch II region; other site 1131462004654 G4 box; other site 1131462004655 G5 box; other site 1131462004656 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 1131462004657 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 1131462004658 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 1131462004659 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1131462004660 GIY-YIG motif/motif A; other site 1131462004661 putative active site [active] 1131462004662 putative metal binding site [ion binding]; other site 1131462004663 Homoserine O-succinyltransferase; Region: HTS; pfam04204 1131462004664 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1131462004665 proposed active site lysine [active] 1131462004666 conserved cys residue [active] 1131462004667 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1131462004668 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1131462004669 dimer interface [polypeptide binding]; other site 1131462004670 active site 1131462004671 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1131462004672 catalytic residues [active] 1131462004673 substrate binding site [chemical binding]; other site 1131462004674 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1131462004675 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1131462004676 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 1131462004677 Ligand Binding Site [chemical binding]; other site 1131462004678 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 1131462004679 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 1131462004680 homodimer interface [polypeptide binding]; other site 1131462004681 substrate-cofactor binding pocket; other site 1131462004682 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462004683 catalytic residue [active] 1131462004684 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1131462004685 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1131462004686 active site 1131462004687 multimer interface [polypeptide binding]; other site 1131462004688 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1131462004689 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 1131462004690 dimer interface [polypeptide binding]; other site 1131462004691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462004692 catalytic residue [active] 1131462004693 Transcriptional regulator; Region: Rrf2; cl17282 1131462004694 Rrf2 family protein; Region: rrf2_super; TIGR00738 1131462004695 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1131462004696 serine O-acetyltransferase; Region: cysE; TIGR01172 1131462004697 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 1131462004698 trimer interface [polypeptide binding]; other site 1131462004699 active site 1131462004700 substrate binding site [chemical binding]; other site 1131462004701 CoA binding site [chemical binding]; other site 1131462004702 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 1131462004703 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 1131462004704 Ligand Binding Site [chemical binding]; other site 1131462004705 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1131462004706 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1131462004707 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1131462004708 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 1131462004709 putative ATP binding site [chemical binding]; other site 1131462004710 putative substrate interface [chemical binding]; other site 1131462004711 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 1131462004712 metal-binding site [ion binding] 1131462004713 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1131462004714 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 1131462004715 metal-binding site [ion binding] 1131462004716 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1131462004717 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 1131462004718 metal-binding site [ion binding] 1131462004719 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1131462004720 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1131462004721 Uncharacterized family 2; belongs to a superfamily containing transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_2; cd10159 1131462004722 putative homodimer interface [polypeptide binding]; other site 1131462004723 putative homotetramer interface [polypeptide binding]; other site 1131462004724 putative allosteric switch controlling residues; other site 1131462004725 putative metal binding site [ion binding]; other site 1131462004726 putative homodimer-homodimer interface [polypeptide binding]; other site 1131462004727 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 1131462004728 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1131462004729 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1131462004730 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1131462004731 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1131462004732 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1131462004733 dimerization interface [polypeptide binding]; other site 1131462004734 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 1131462004735 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 1131462004736 homodimer interface [polypeptide binding]; other site 1131462004737 substrate-cofactor binding pocket; other site 1131462004738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462004739 catalytic residue [active] 1131462004740 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1131462004741 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 1131462004742 dimer interface [polypeptide binding]; other site 1131462004743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462004744 catalytic residue [active] 1131462004745 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1131462004746 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1131462004747 active site 1131462004748 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1131462004749 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 1131462004750 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1131462004751 catalytic residue [active] 1131462004752 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 1131462004753 DsrE/DsrF-like family; Region: DrsE; pfam02635 1131462004754 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1131462004755 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 1131462004756 Walker A motif; other site 1131462004757 ATP binding site [chemical binding]; other site 1131462004758 Walker B motif; other site 1131462004759 arginine finger; other site 1131462004760 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1131462004761 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1131462004762 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 1131462004763 glutaminase active site [active] 1131462004764 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 1131462004765 dimer interface [polypeptide binding]; other site 1131462004766 active site 1131462004767 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 1131462004768 dimer interface [polypeptide binding]; other site 1131462004769 active site 1131462004770 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1131462004771 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 1131462004772 active site 1131462004773 substrate binding site [chemical binding]; other site 1131462004774 metal binding site [ion binding]; metal-binding site 1131462004775 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1131462004776 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1131462004777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1131462004778 YbbR-like protein; Region: YbbR; pfam07949 1131462004779 YbbR-like protein; Region: YbbR; pfam07949 1131462004780 TIGR00159 family protein; Region: TIGR00159 1131462004781 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1131462004782 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 1131462004783 homodimer interface [polypeptide binding]; other site 1131462004784 metal binding site [ion binding]; metal-binding site 1131462004785 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462004786 Zn2+ binding site [ion binding]; other site 1131462004787 Mg2+ binding site [ion binding]; other site 1131462004788 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1131462004789 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1131462004790 Alcohol acetyltransferase; Region: AATase; pfam07247 1131462004791 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 1131462004792 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 1131462004793 G1 box; other site 1131462004794 GTP/Mg2+ binding site [chemical binding]; other site 1131462004795 Switch I region; other site 1131462004796 G2 box; other site 1131462004797 Switch II region; other site 1131462004798 G3 box; other site 1131462004799 G4 box; other site 1131462004800 G5 box; other site 1131462004801 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1131462004802 Aspartase; Region: Aspartase; cd01357 1131462004803 active sites [active] 1131462004804 tetramer interface [polypeptide binding]; other site 1131462004805 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 1131462004806 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 1131462004807 FeS/SAM binding site; other site 1131462004808 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 1131462004809 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 1131462004810 FeS/SAM binding site; other site 1131462004811 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1131462004812 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 1131462004813 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 1131462004814 non-specific DNA binding site [nucleotide binding]; other site 1131462004815 salt bridge; other site 1131462004816 sequence-specific DNA binding site [nucleotide binding]; other site 1131462004817 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 1131462004818 ATP binding site [chemical binding]; other site 1131462004819 Mg2+ binding site [ion binding]; other site 1131462004820 G-X-G motif; other site 1131462004821 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 1131462004822 Phage holin protein (Holin_LLH); Region: Holin_LLH; cl09890 1131462004823 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1131462004824 Peptidase family M23; Region: Peptidase_M23; pfam01551 1131462004825 Holin family; Region: Phage_holin_4; pfam05105 1131462004826 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1131462004827 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1131462004828 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1131462004829 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1131462004830 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 1131462004831 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1131462004832 Phage terminase large subunit; Region: Terminase_3; cl12054 1131462004833 Terminase-like family; Region: Terminase_6; pfam03237 1131462004834 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 1131462004835 DNA binding residues [nucleotide binding] 1131462004836 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1131462004837 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1131462004838 DNA binding residues [nucleotide binding] 1131462004839 CHC2 zinc finger; Region: zf-CHC2; cl17510 1131462004840 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 1131462004841 active site 1131462004842 metal binding site [ion binding]; metal-binding site 1131462004843 interdomain interaction site; other site 1131462004844 AAA domain; Region: AAA_25; pfam13481 1131462004845 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 1131462004846 Walker A motif; other site 1131462004847 ATP binding site [chemical binding]; other site 1131462004848 Walker B motif; other site 1131462004849 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 1131462004850 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1131462004851 Transposase; Region: HTH_Tnp_1; pfam01527 1131462004852 putative transposase OrfB; Reviewed; Region: PHA02517 1131462004853 HTH-like domain; Region: HTH_21; pfam13276 1131462004854 Integrase core domain; Region: rve; pfam00665 1131462004855 Integrase core domain; Region: rve_3; pfam13683 1131462004856 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1131462004857 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 1131462004858 non-specific DNA binding site [nucleotide binding]; other site 1131462004859 salt bridge; other site 1131462004860 sequence-specific DNA binding site [nucleotide binding]; other site 1131462004861 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1131462004862 Double zinc ribbon; Region: DZR; pfam12773 1131462004863 Fic family protein [Function unknown]; Region: COG3177 1131462004864 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 1131462004865 Fic/DOC family; Region: Fic; pfam02661 1131462004866 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 1131462004867 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 1131462004868 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1131462004869 non-specific DNA binding site [nucleotide binding]; other site 1131462004870 salt bridge; other site 1131462004871 sequence-specific DNA binding site [nucleotide binding]; other site 1131462004872 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1131462004873 Int/Topo IB signature motif; other site 1131462004874 Protease prsW family; Region: PrsW-protease; pfam13367 1131462004875 Domain of unknown function (DUF378); Region: DUF378; pfam04070 1131462004876 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 1131462004877 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1131462004878 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1131462004879 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1131462004880 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1131462004881 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1131462004882 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1131462004883 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1131462004884 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1131462004885 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1131462004886 Uncharacterized conserved protein [Function unknown]; Region: COG5663 1131462004887 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1131462004888 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 1131462004889 homodimer interface [polypeptide binding]; other site 1131462004890 NAD binding pocket [chemical binding]; other site 1131462004891 ATP binding pocket [chemical binding]; other site 1131462004892 Mg binding site [ion binding]; other site 1131462004893 active-site loop [active] 1131462004894 argininosuccinate lyase; Provisional; Region: PRK00855 1131462004895 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1131462004896 active sites [active] 1131462004897 tetramer interface [polypeptide binding]; other site 1131462004898 argininosuccinate synthase; Provisional; Region: PRK13820 1131462004899 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 1131462004900 ANP binding site [chemical binding]; other site 1131462004901 Substrate Binding Site II [chemical binding]; other site 1131462004902 Substrate Binding Site I [chemical binding]; other site 1131462004903 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1131462004904 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1131462004905 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1131462004906 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1131462004907 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1131462004908 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1131462004909 nucleotide binding site [chemical binding]; other site 1131462004910 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1131462004911 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 1131462004912 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1131462004913 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 1131462004914 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1131462004915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 1131462004916 PspC domain; Region: PspC; pfam04024 1131462004917 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 1131462004918 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1131462004919 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1131462004920 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 1131462004921 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 1131462004922 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 1131462004923 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 1131462004924 putative substrate-binding site; other site 1131462004925 nickel binding site [ion binding]; other site 1131462004926 aspartate aminotransferase; Provisional; Region: PRK05764 1131462004927 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 1131462004928 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462004929 homodimer interface [polypeptide binding]; other site 1131462004930 catalytic residue [active] 1131462004931 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1131462004932 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1131462004933 trimerization site [polypeptide binding]; other site 1131462004934 active site 1131462004935 Bacterial Ig-like domain; Region: Big_5; pfam13205 1131462004936 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1131462004937 MG2 domain; Region: A2M_N; pfam01835 1131462004938 MG2 domain; Region: A2M_N; pfam01835 1131462004939 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1131462004940 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 1131462004941 putative ligand binding pocket/active site [active] 1131462004942 putative metal binding site [ion binding]; other site 1131462004943 acetylornithine aminotransferase; Provisional; Region: PRK02627 1131462004944 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 1131462004945 inhibitor-cofactor binding pocket; inhibition site 1131462004946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462004947 catalytic residue [active] 1131462004948 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 1131462004949 feedback inhibition sensing region; other site 1131462004950 homohexameric interface [polypeptide binding]; other site 1131462004951 nucleotide binding site [chemical binding]; other site 1131462004952 N-acetyl-L-glutamate binding site [chemical binding]; other site 1131462004953 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 1131462004954 heterotetramer interface [polypeptide binding]; other site 1131462004955 active site pocket [active] 1131462004956 cleavage site 1131462004957 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1131462004958 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1131462004959 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1131462004960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1131462004961 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1131462004962 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 1131462004963 active site 1131462004964 phosphorylation site [posttranslational modification] 1131462004965 intermolecular recognition site; other site 1131462004966 dimerization interface [polypeptide binding]; other site 1131462004967 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 1131462004968 DNA binding site [nucleotide binding] 1131462004969 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1131462004970 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 1131462004971 dimerization interface [polypeptide binding]; other site 1131462004972 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 1131462004973 dimer interface [polypeptide binding]; other site 1131462004974 phosphorylation site [posttranslational modification] 1131462004975 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 1131462004976 ATP binding site [chemical binding]; other site 1131462004977 Mg2+ binding site [ion binding]; other site 1131462004978 G-X-G motif; other site 1131462004979 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1131462004980 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1131462004981 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462004982 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1131462004983 Walker A/P-loop; other site 1131462004984 ATP binding site [chemical binding]; other site 1131462004985 Q-loop/lid; other site 1131462004986 ABC transporter signature motif; other site 1131462004987 Walker B; other site 1131462004988 D-loop; other site 1131462004989 H-loop/switch region; other site 1131462004990 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1131462004991 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 1131462004992 active site 1131462004993 metal binding site [ion binding]; metal-binding site 1131462004994 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1131462004995 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 1131462004996 23S rRNA interface [nucleotide binding]; other site 1131462004997 L3 interface [polypeptide binding]; other site 1131462004998 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1131462004999 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1131462005000 dimerization interface 3.5A [polypeptide binding]; other site 1131462005001 active site 1131462005002 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1131462005003 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1131462005004 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1131462005005 alphaNTD - beta interaction site [polypeptide binding]; other site 1131462005006 alphaNTD homodimer interface [polypeptide binding]; other site 1131462005007 alphaNTD - beta' interaction site [polypeptide binding]; other site 1131462005008 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1131462005009 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1131462005010 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1131462005011 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 1131462005012 RNA binding surface [nucleotide binding]; other site 1131462005013 30S ribosomal protein S11; Validated; Region: PRK05309 1131462005014 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1131462005015 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1131462005016 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 1131462005017 rRNA binding site [nucleotide binding]; other site 1131462005018 predicted 30S ribosome binding site; other site 1131462005019 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 1131462005020 active site 1131462005021 adenylate kinase; Reviewed; Region: adk; PRK00279 1131462005022 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 1131462005023 AMP-binding site [chemical binding]; other site 1131462005024 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1131462005025 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1131462005026 SecY translocase; Region: SecY; pfam00344 1131462005027 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1131462005028 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1131462005029 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1131462005030 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1131462005031 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 1131462005032 5S rRNA interface [nucleotide binding]; other site 1131462005033 L27 interface [polypeptide binding]; other site 1131462005034 23S rRNA interface [nucleotide binding]; other site 1131462005035 L5 interface [polypeptide binding]; other site 1131462005036 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1131462005037 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1131462005038 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1131462005039 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1131462005040 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1131462005041 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1131462005042 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1131462005043 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1131462005044 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1131462005045 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1131462005046 RNA binding site [nucleotide binding]; other site 1131462005047 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1131462005048 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1131462005049 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 1131462005050 putative translocon interaction site; other site 1131462005051 signal recognition particle (SRP54) interaction site; other site 1131462005052 L23 interface [polypeptide binding]; other site 1131462005053 trigger factor interaction site; other site 1131462005054 23S rRNA interface [nucleotide binding]; other site 1131462005055 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 1131462005056 5S rRNA interface [nucleotide binding]; other site 1131462005057 23S rRNA interface [nucleotide binding]; other site 1131462005058 putative antibiotic binding site [chemical binding]; other site 1131462005059 L25 interface [polypeptide binding]; other site 1131462005060 L27 interface [polypeptide binding]; other site 1131462005061 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1131462005062 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 1131462005063 G-X-X-G motif; other site 1131462005064 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1131462005065 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 1131462005066 putative translocon binding site; other site 1131462005067 protein-rRNA interface [nucleotide binding]; other site 1131462005068 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1131462005069 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1131462005070 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1131462005071 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1131462005072 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1131462005073 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1131462005074 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1131462005075 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1131462005076 elongation factor Tu; Reviewed; Region: PRK00049 1131462005077 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1131462005078 G1 box; other site 1131462005079 GEF interaction site [polypeptide binding]; other site 1131462005080 GTP/Mg2+ binding site [chemical binding]; other site 1131462005081 Switch I region; other site 1131462005082 G2 box; other site 1131462005083 G3 box; other site 1131462005084 Switch II region; other site 1131462005085 G4 box; other site 1131462005086 G5 box; other site 1131462005087 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 1131462005088 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 1131462005089 Antibiotic Binding Site [chemical binding]; other site 1131462005090 elongation factor G; Reviewed; Region: PRK00007 1131462005091 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1131462005092 G1 box; other site 1131462005093 putative GEF interaction site [polypeptide binding]; other site 1131462005094 GTP/Mg2+ binding site [chemical binding]; other site 1131462005095 Switch I region; other site 1131462005096 G2 box; other site 1131462005097 G3 box; other site 1131462005098 Switch II region; other site 1131462005099 G4 box; other site 1131462005100 G5 box; other site 1131462005101 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 1131462005102 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 1131462005103 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 1131462005104 30S ribosomal protein S7; Validated; Region: PRK05302 1131462005105 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 1131462005106 S17 interaction site [polypeptide binding]; other site 1131462005107 S8 interaction site; other site 1131462005108 16S rRNA interaction site [nucleotide binding]; other site 1131462005109 streptomycin interaction site [chemical binding]; other site 1131462005110 23S rRNA interaction site [nucleotide binding]; other site 1131462005111 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1131462005112 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 1131462005113 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1131462005114 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1131462005115 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1131462005116 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1131462005117 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1131462005118 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1131462005119 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1131462005120 G-loop; other site 1131462005121 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 1131462005122 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1131462005123 DNA binding site [nucleotide binding] 1131462005124 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1131462005125 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1131462005126 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 1131462005127 RPB12 interaction site [polypeptide binding]; other site 1131462005128 RPB1 interaction site [polypeptide binding]; other site 1131462005129 RPB10 interaction site [polypeptide binding]; other site 1131462005130 RPB11 interaction site [polypeptide binding]; other site 1131462005131 RPB3 interaction site [polypeptide binding]; other site 1131462005132 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 1131462005133 peripheral dimer interface [polypeptide binding]; other site 1131462005134 core dimer interface [polypeptide binding]; other site 1131462005135 L10 interface [polypeptide binding]; other site 1131462005136 L11 interface [polypeptide binding]; other site 1131462005137 putative EF-Tu interaction site [polypeptide binding]; other site 1131462005138 putative EF-G interaction site [polypeptide binding]; other site 1131462005139 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 1131462005140 23S rRNA interface [nucleotide binding]; other site 1131462005141 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1131462005142 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 1131462005143 mRNA/rRNA interface [nucleotide binding]; other site 1131462005144 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1131462005145 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 1131462005146 23S rRNA interface [nucleotide binding]; other site 1131462005147 L7/L12 interface [polypeptide binding]; other site 1131462005148 putative thiostrepton binding site; other site 1131462005149 L25 interface [polypeptide binding]; other site 1131462005150 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1131462005151 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1131462005152 putative homodimer interface [polypeptide binding]; other site 1131462005153 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1131462005154 heterodimer interface [polypeptide binding]; other site 1131462005155 homodimer interface [polypeptide binding]; other site 1131462005156 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 1131462005157 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1131462005158 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 1131462005159 active site 1131462005160 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 1131462005161 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 1131462005162 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462005163 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462005164 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 1131462005165 active site 1131462005166 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 1131462005167 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 1131462005168 Response regulator receiver domain; Region: Response_reg; pfam00072 1131462005169 active site 1131462005170 phosphorylation site [posttranslational modification] 1131462005171 intermolecular recognition site; other site 1131462005172 dimerization interface [polypeptide binding]; other site 1131462005173 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1131462005174 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 1131462005175 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1131462005176 RNA polymerase factor sigma-70; Validated; Region: PRK08295 1131462005177 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1131462005178 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1131462005179 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1131462005180 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1131462005181 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1131462005182 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 1131462005183 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1131462005184 folate binding site [chemical binding]; other site 1131462005185 NADP+ binding site [chemical binding]; other site 1131462005186 Thymidylate synthase complementing protein; Region: Thy1; cl03630 1131462005187 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 1131462005188 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 1131462005189 active site 1131462005190 metal binding site [ion binding]; metal-binding site 1131462005191 dimerization interface [polypeptide binding]; other site 1131462005192 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1131462005193 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1131462005194 active site 1131462005195 HIGH motif; other site 1131462005196 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1131462005197 KMSKS motif; other site 1131462005198 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1131462005199 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1131462005200 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1131462005201 HIGH motif; other site 1131462005202 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1131462005203 active site 1131462005204 KMSKS motif; other site 1131462005205 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1131462005206 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1131462005207 substrate binding site; other site 1131462005208 dimer interface; other site 1131462005209 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 1131462005210 homotrimer interaction site [polypeptide binding]; other site 1131462005211 zinc binding site [ion binding]; other site 1131462005212 CDP-binding sites; other site 1131462005213 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 1131462005214 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 1131462005215 putative active site [active] 1131462005216 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 1131462005217 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1131462005218 DNA repair protein RadA; Provisional; Region: PRK11823 1131462005219 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 1131462005220 Walker A motif; other site 1131462005221 ATP binding site [chemical binding]; other site 1131462005222 Walker B motif; other site 1131462005223 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1131462005224 Clp protease ATP binding subunit; Region: clpC; CHL00095 1131462005225 Clp amino terminal domain; Region: Clp_N; pfam02861 1131462005226 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 1131462005227 Walker A motif; other site 1131462005228 ATP binding site [chemical binding]; other site 1131462005229 Walker B motif; other site 1131462005230 arginine finger; other site 1131462005231 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 1131462005232 Walker A motif; other site 1131462005233 ATP binding site [chemical binding]; other site 1131462005234 Walker B motif; other site 1131462005235 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1131462005236 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 1131462005237 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 1131462005238 ADP binding site [chemical binding]; other site 1131462005239 phosphagen binding site; other site 1131462005240 substrate specificity loop; other site 1131462005241 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 1131462005242 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 1131462005243 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 1131462005244 nudix motif; other site 1131462005245 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1131462005246 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 1131462005247 catalytic residues [active] 1131462005248 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1131462005249 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 1131462005250 S-adenosylmethionine binding site [chemical binding]; other site 1131462005251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1131462005252 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1131462005253 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1131462005254 putative metal binding site; other site 1131462005255 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1131462005256 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 1131462005257 binding surface 1131462005258 TPR motif; other site 1131462005259 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 1131462005260 binding surface 1131462005261 TPR motif; other site 1131462005262 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1131462005263 dinuclear metal binding motif [ion binding]; other site 1131462005264 Coat F domain; Region: Coat_F; pfam07875 1131462005265 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1131462005266 dimanganese center [ion binding]; other site 1131462005267 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1131462005268 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1131462005269 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1131462005270 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 1131462005271 homotrimer interaction site [polypeptide binding]; other site 1131462005272 putative active site [active] 1131462005273 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 1131462005274 homotrimer interaction site [polypeptide binding]; other site 1131462005275 putative active site [active] 1131462005276 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1131462005277 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1131462005278 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1131462005279 active site 1131462005280 HIGH motif; other site 1131462005281 dimer interface [polypeptide binding]; other site 1131462005282 KMSKS motif; other site 1131462005283 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 1131462005284 RNA binding surface [nucleotide binding]; other site 1131462005285 Transglycosylase; Region: Transgly; pfam00912 1131462005286 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1131462005287 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1131462005288 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1131462005289 MutS domain III; Region: MutS_III; pfam05192 1131462005290 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1131462005291 Walker A/P-loop; other site 1131462005292 ATP binding site [chemical binding]; other site 1131462005293 Q-loop/lid; other site 1131462005294 ABC transporter signature motif; other site 1131462005295 Walker B; other site 1131462005296 D-loop; other site 1131462005297 H-loop/switch region; other site 1131462005298 Smr domain; Region: Smr; pfam01713 1131462005299 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1131462005300 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1131462005301 Peptidase family U32; Region: Peptidase_U32; pfam01136 1131462005302 Collagenase; Region: DUF3656; pfam12392 1131462005303 Peptidase family U32; Region: Peptidase_U32; pfam01136 1131462005304 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1131462005305 TIGR01777 family protein; Region: yfcH 1131462005306 putative NAD(P) binding site [chemical binding]; other site 1131462005307 putative active site [active] 1131462005308 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 1131462005309 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1131462005310 Yip1 domain; Region: Yip1; pfam04893 1131462005311 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 1131462005312 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 1131462005313 Response regulator receiver domain; Region: Response_reg; pfam00072 1131462005314 active site 1131462005315 phosphorylation site [posttranslational modification] 1131462005316 intermolecular recognition site; other site 1131462005317 dimerization interface [polypeptide binding]; other site 1131462005318 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1131462005319 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 1131462005320 non-specific DNA binding site [nucleotide binding]; other site 1131462005321 salt bridge; other site 1131462005322 sequence-specific DNA binding site [nucleotide binding]; other site 1131462005323 YcxB-like protein; Region: YcxB; pfam14317 1131462005324 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1131462005325 TPR motif; other site 1131462005326 binding surface 1131462005327 SIR2-like domain; Region: SIR2_2; pfam13289 1131462005328 putative transposase OrfB; Reviewed; Region: PHA02517 1131462005329 HTH-like domain; Region: HTH_21; pfam13276 1131462005330 Integrase core domain; Region: rve; pfam00665 1131462005331 Integrase core domain; Region: rve_3; pfam13683 1131462005332 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1131462005333 Transposase; Region: HTH_Tnp_1; pfam01527 1131462005334 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1131462005335 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1131462005336 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1131462005337 reductive dehalogenase; Region: RDH; TIGR02486 1131462005338 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462005339 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1131462005340 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1131462005341 reductive dehalogenase; Region: RDH; TIGR02486 1131462005342 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462005343 Alphaherpesvirus glycoprotein E; Region: Herpes_gE; pfam02480 1131462005344 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1131462005345 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 1131462005346 Cell division protein ZapA; Region: ZapA; pfam05164 1131462005347 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1131462005348 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 1131462005349 putative tRNA-binding site [nucleotide binding]; other site 1131462005350 B3/4 domain; Region: B3_4; pfam03483 1131462005351 tRNA synthetase B5 domain; Region: B5; pfam03484 1131462005352 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 1131462005353 dimer interface [polypeptide binding]; other site 1131462005354 motif 1; other site 1131462005355 motif 3; other site 1131462005356 motif 2; other site 1131462005357 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1131462005358 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1131462005359 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1131462005360 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 1131462005361 dimer interface [polypeptide binding]; other site 1131462005362 motif 1; other site 1131462005363 active site 1131462005364 motif 2; other site 1131462005365 motif 3; other site 1131462005366 YqzL-like protein; Region: YqzL; pfam14006 1131462005367 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1131462005368 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1131462005369 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1131462005370 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1131462005371 23S rRNA binding site [nucleotide binding]; other site 1131462005372 L21 binding site [polypeptide binding]; other site 1131462005373 L13 binding site [polypeptide binding]; other site 1131462005374 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1131462005375 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1131462005376 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1131462005377 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1131462005378 Winged helix-turn helix; Region: HTH_29; pfam13551 1131462005379 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1131462005380 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1131462005381 ligand binding site [chemical binding]; other site 1131462005382 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 1131462005383 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 1131462005384 generic binding surface I; other site 1131462005385 generic binding surface II; other site 1131462005386 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1131462005387 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1131462005388 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 1131462005389 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1131462005390 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1131462005391 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 1131462005392 active site 1131462005393 dimer interface [polypeptide binding]; other site 1131462005394 motif 1; other site 1131462005395 motif 2; other site 1131462005396 motif 3; other site 1131462005397 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 1131462005398 anticodon binding site; other site 1131462005399 YtxC-like family; Region: YtxC; cl08500 1131462005400 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1131462005401 Spore germination protein; Region: Spore_permease; cl17796 1131462005402 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 1131462005403 dimerization interface [polypeptide binding]; other site 1131462005404 putative DNA binding site [nucleotide binding]; other site 1131462005405 putative Zn2+ binding site [ion binding]; other site 1131462005406 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1131462005407 PAS domain S-box; Region: sensory_box; TIGR00229 1131462005408 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 1131462005409 putative active site [active] 1131462005410 heme pocket [chemical binding]; other site 1131462005411 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462005412 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462005413 metal binding site [ion binding]; metal-binding site 1131462005414 active site 1131462005415 I-site; other site 1131462005416 spermidine synthase; Provisional; Region: PRK00811 1131462005417 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 1131462005418 S-adenosylmethionine binding site [chemical binding]; other site 1131462005419 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1131462005420 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 1131462005421 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1131462005422 catalytic residue [active] 1131462005423 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1131462005424 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1131462005425 Coenzyme A binding pocket [chemical binding]; other site 1131462005426 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1131462005427 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1131462005428 active site 1131462005429 catalytic residues [active] 1131462005430 metal binding site [ion binding]; metal-binding site 1131462005431 Iron only nitrogenase protein AnfO (AnfO_nitrog); Region: AnfO_nitrog; cl17112 1131462005432 Iron only nitrogenase protein AnfO (AnfO_nitrog); Region: AnfO_nitrog; cl17112 1131462005433 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1131462005434 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1131462005435 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1131462005436 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 1131462005437 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1131462005438 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 1131462005439 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1131462005440 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 1131462005441 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 1131462005442 MoFe protein beta/alpha subunit interactions; other site 1131462005443 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1131462005444 Beta subunit P cluster binding residues; other site 1131462005445 MoFe protein beta subunit/Fe protein contacts; other site 1131462005446 MoFe protein dimer/ dimer interactions; other site 1131462005447 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 1131462005448 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 1131462005449 MoFe protein alpha/beta subunit interactions; other site 1131462005450 Alpha subunit P cluster binding residues; other site 1131462005451 FeMoco binding residues [chemical binding]; other site 1131462005452 MoFe protein alpha subunit/Fe protein contacts; other site 1131462005453 MoFe protein dimer/ dimer interactions; other site 1131462005454 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 1131462005455 nitrogenase iron protein; Region: nifH; TIGR01287 1131462005456 Nucleotide-binding sites [chemical binding]; other site 1131462005457 Walker A motif; other site 1131462005458 Switch I region of nucleotide binding site; other site 1131462005459 Fe4S4 binding sites [ion binding]; other site 1131462005460 Switch II region of nucleotide binding site; other site 1131462005461 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 1131462005462 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1131462005463 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 1131462005464 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1131462005465 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 1131462005466 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1131462005467 Family description; Region: VCBS; pfam13517 1131462005468 Family description; Region: VCBS; pfam13517 1131462005469 Family description; Region: VCBS; pfam13517 1131462005470 Tocopherol cyclase; Region: Tocopherol_cycl; cl14571 1131462005471 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 1131462005472 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 1131462005473 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1131462005474 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 1131462005475 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1131462005476 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1131462005477 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 1131462005478 B12 binding site [chemical binding]; other site 1131462005479 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 1131462005480 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1131462005481 substrate binding pocket [chemical binding]; other site 1131462005482 dimer interface [polypeptide binding]; other site 1131462005483 inhibitor binding site; inhibition site 1131462005484 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1131462005485 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1131462005486 DNA-binding site [nucleotide binding]; DNA binding site 1131462005487 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1131462005488 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1131462005489 DNA-binding site [nucleotide binding]; DNA binding site 1131462005490 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1131462005491 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1131462005492 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1131462005493 B12 binding site [chemical binding]; other site 1131462005494 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1131462005495 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1131462005496 cofactor binding site; other site 1131462005497 hypothetical protein; Provisional; Region: PRK06153 1131462005498 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; cd01483 1131462005499 ATP binding site [chemical binding]; other site 1131462005500 substrate interface [chemical binding]; other site 1131462005501 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1131462005502 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 1131462005503 DXD motif; other site 1131462005504 peptidase T-like protein; Region: PepT-like; TIGR01883 1131462005505 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 1131462005506 metal binding site [ion binding]; metal-binding site 1131462005507 putative dimer interface [polypeptide binding]; other site 1131462005508 Uncharacterized conserved protein [Function unknown]; Region: COG4198 1131462005509 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 1131462005510 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 1131462005511 glycerate dehydrogenase; Provisional; Region: PRK06436 1131462005512 putative ligand binding site [chemical binding]; other site 1131462005513 putative NAD binding site [chemical binding]; other site 1131462005514 putative catalytic site [active] 1131462005515 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1131462005516 L-serine binding site [chemical binding]; other site 1131462005517 ACT domain interface; other site 1131462005518 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 1131462005519 homodimer interface [polypeptide binding]; other site 1131462005520 substrate-cofactor binding pocket; other site 1131462005521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462005522 catalytic residue [active] 1131462005523 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1131462005524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1131462005525 Winged helix-turn helix; Region: HTH_29; pfam13551 1131462005526 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1131462005527 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1131462005528 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 1131462005529 Walker A motif; other site 1131462005530 ATP binding site [chemical binding]; other site 1131462005531 Walker B motif; other site 1131462005532 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1131462005533 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 1131462005534 Walker A motif; other site 1131462005535 ATP binding site [chemical binding]; other site 1131462005536 Walker B motif; other site 1131462005537 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1131462005538 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 1131462005539 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1131462005540 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 1131462005541 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1131462005542 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1131462005543 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1131462005544 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1131462005545 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 1131462005546 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1131462005547 Competence protein A; Region: Competence_A; pfam11104 1131462005548 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1131462005549 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1131462005550 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1131462005551 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1131462005552 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1131462005553 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1131462005554 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1131462005555 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1131462005556 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1131462005557 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1131462005558 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1131462005559 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1131462005560 dimer interface [polypeptide binding]; other site 1131462005561 active site 1131462005562 catalytic residue [active] 1131462005563 aspartate kinase I; Reviewed; Region: PRK08210 1131462005564 AAK_AKi-DapG-BS: Amino Acid Kinase Superfamily (AAK), AKi-DapG; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional class enzyme found in Bacilli; Region: AAK_AKi-DapG-BS; cd04260 1131462005565 putative catalytic residues [active] 1131462005566 putative nucleotide binding site [chemical binding]; other site 1131462005567 putative aspartate binding site [chemical binding]; other site 1131462005568 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 1131462005569 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1131462005570 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1131462005571 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1131462005572 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 1131462005573 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 1131462005574 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 1131462005575 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1131462005576 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1131462005577 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1131462005578 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 1131462005579 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1131462005580 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 1131462005581 putative substrate translocation pore; other site 1131462005582 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1131462005583 trimer interface [polypeptide binding]; other site 1131462005584 active site 1131462005585 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1131462005586 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1131462005587 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1131462005588 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1131462005589 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1131462005590 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1131462005591 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 1131462005592 NodB motif; other site 1131462005593 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1131462005594 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1131462005595 RNase E interface [polypeptide binding]; other site 1131462005596 trimer interface [polypeptide binding]; other site 1131462005597 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1131462005598 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1131462005599 RNase E interface [polypeptide binding]; other site 1131462005600 trimer interface [polypeptide binding]; other site 1131462005601 active site 1131462005602 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 1131462005603 putative nucleic acid binding region [nucleotide binding]; other site 1131462005604 G-X-X-G motif; other site 1131462005605 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 1131462005606 RNA binding site [nucleotide binding]; other site 1131462005607 domain interface; other site 1131462005608 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 1131462005609 16S/18S rRNA binding site [nucleotide binding]; other site 1131462005610 S13e-L30e interaction site [polypeptide binding]; other site 1131462005611 25S rRNA binding site [nucleotide binding]; other site 1131462005612 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1131462005613 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1131462005614 active site 1131462005615 Riboflavin kinase; Region: Flavokinase; smart00904 1131462005616 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 1131462005617 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1131462005618 RNA binding site [nucleotide binding]; other site 1131462005619 active site 1131462005620 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1131462005621 DHH family; Region: DHH; pfam01368 1131462005622 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1131462005623 translation initiation factor IF-2; Region: IF-2; TIGR00487 1131462005624 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1131462005625 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1131462005626 G1 box; other site 1131462005627 putative GEF interaction site [polypeptide binding]; other site 1131462005628 GTP/Mg2+ binding site [chemical binding]; other site 1131462005629 Switch I region; other site 1131462005630 G2 box; other site 1131462005631 G3 box; other site 1131462005632 Switch II region; other site 1131462005633 G4 box; other site 1131462005634 G5 box; other site 1131462005635 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 1131462005636 Translation-initiation factor 2; Region: IF-2; pfam11987 1131462005637 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 1131462005638 Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]; Region: RPL8A; COG1358 1131462005639 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 1131462005640 putative RNA binding cleft [nucleotide binding]; other site 1131462005641 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1131462005642 NusA N-terminal domain; Region: NusA_N; pfam08529 1131462005643 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 1131462005644 RNA binding site [nucleotide binding]; other site 1131462005645 homodimer interface [polypeptide binding]; other site 1131462005646 NusA-like KH domain; Region: KH_5; pfam13184 1131462005647 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 1131462005648 G-X-X-G motif; other site 1131462005649 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 1131462005650 Sm and related proteins; Region: Sm_like; cl00259 1131462005651 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1131462005652 putative oligomer interface [polypeptide binding]; other site 1131462005653 putative RNA binding site [nucleotide binding]; other site 1131462005654 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1131462005655 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 1131462005656 generic binding surface II; other site 1131462005657 generic binding surface I; other site 1131462005658 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1131462005659 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 1131462005660 active site 1131462005661 putative PHP Thumb interface [polypeptide binding]; other site 1131462005662 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1131462005663 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1131462005664 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 1131462005665 dimer interface [polypeptide binding]; other site 1131462005666 motif 1; other site 1131462005667 active site 1131462005668 motif 2; other site 1131462005669 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 1131462005670 putative deacylase active site [active] 1131462005671 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 1131462005672 active site 1131462005673 motif 3; other site 1131462005674 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 1131462005675 anticodon binding site; other site 1131462005676 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1131462005677 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1131462005678 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1131462005679 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1131462005680 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 1131462005681 active site 1131462005682 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 1131462005683 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 1131462005684 putative substrate binding region [chemical binding]; other site 1131462005685 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1131462005686 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1131462005687 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1131462005688 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1131462005689 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1131462005690 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1131462005691 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1131462005692 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1131462005693 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1131462005694 catalytic residue [active] 1131462005695 putative FPP diphosphate binding site; other site 1131462005696 putative FPP binding hydrophobic cleft; other site 1131462005697 dimer interface [polypeptide binding]; other site 1131462005698 putative IPP diphosphate binding site; other site 1131462005699 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1131462005700 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 1131462005701 hinge region; other site 1131462005702 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 1131462005703 putative nucleotide binding site [chemical binding]; other site 1131462005704 uridine monophosphate binding site [chemical binding]; other site 1131462005705 homohexameric interface [polypeptide binding]; other site 1131462005706 elongation factor Ts; Reviewed; Region: tsf; PRK12332 1131462005707 UBA/TS-N domain; Region: UBA; pfam00627 1131462005708 Elongation factor TS; Region: EF_TS; pfam00889 1131462005709 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 1131462005710 rRNA interaction site [nucleotide binding]; other site 1131462005711 S8 interaction site; other site 1131462005712 putative laminin-1 binding site; other site 1131462005713 transcriptional repressor CodY; Validated; Region: PRK04158 1131462005714 CodY GAF-like domain; Region: CodY; pfam06018 1131462005715 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 1131462005716 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1131462005717 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 1131462005718 Walker A motif; other site 1131462005719 ATP binding site [chemical binding]; other site 1131462005720 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1131462005721 Walker B motif; other site 1131462005722 arginine finger; other site 1131462005723 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1131462005724 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 1131462005725 active site 1131462005726 HslU subunit interaction site [polypeptide binding]; other site 1131462005727 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1131462005728 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 1131462005729 active site 1131462005730 DNA binding site [nucleotide binding] 1131462005731 Int/Topo IB signature motif; other site 1131462005732 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1131462005733 Glucose inhibited division protein A; Region: GIDA; pfam01134 1131462005734 DNA topoisomerase I; Validated; Region: PRK05582 1131462005735 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 1131462005736 active site 1131462005737 interdomain interaction site; other site 1131462005738 putative metal-binding site [ion binding]; other site 1131462005739 nucleotide binding site [chemical binding]; other site 1131462005740 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 1131462005741 domain I; other site 1131462005742 DNA binding groove [nucleotide binding] 1131462005743 phosphate binding site [ion binding]; other site 1131462005744 domain II; other site 1131462005745 domain III; other site 1131462005746 nucleotide binding site [chemical binding]; other site 1131462005747 catalytic site [active] 1131462005748 domain IV; other site 1131462005749 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1131462005750 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1131462005751 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1131462005752 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1131462005753 DNA protecting protein DprA; Region: dprA; TIGR00732 1131462005754 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 1131462005755 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 1131462005756 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 1131462005757 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1131462005758 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 1131462005759 non-specific DNA binding site [nucleotide binding]; other site 1131462005760 salt bridge; other site 1131462005761 sequence-specific DNA binding site [nucleotide binding]; other site 1131462005762 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1131462005763 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 1131462005764 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1131462005765 AP (apurinic/apyrimidinic) site pocket; other site 1131462005766 DNA interaction; other site 1131462005767 Metal-binding active site; metal-binding site 1131462005768 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1131462005769 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1131462005770 ligand binding site [chemical binding]; other site 1131462005771 NAD binding site [chemical binding]; other site 1131462005772 dimerization interface [polypeptide binding]; other site 1131462005773 catalytic site [active] 1131462005774 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1131462005775 putative L-serine binding site [chemical binding]; other site 1131462005776 NlpC/P60 family; Region: NLPC_P60; pfam00877 1131462005777 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1131462005778 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1131462005779 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1131462005780 FMN binding site [chemical binding]; other site 1131462005781 substrate binding site [chemical binding]; other site 1131462005782 putative catalytic residue [active] 1131462005783 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1131462005784 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1131462005785 putative DNA binding site [nucleotide binding]; other site 1131462005786 putative homodimer interface [polypeptide binding]; other site 1131462005787 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 1131462005788 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1131462005789 active site 1131462005790 DNA binding site [nucleotide binding] 1131462005791 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1131462005792 DNA binding site [nucleotide binding] 1131462005793 LigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: LigD_Pol_like; cd04861 1131462005794 nucleotide binding site [chemical binding]; other site 1131462005795 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1131462005796 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1131462005797 G1 box; other site 1131462005798 putative GEF interaction site [polypeptide binding]; other site 1131462005799 GTP/Mg2+ binding site [chemical binding]; other site 1131462005800 Switch I region; other site 1131462005801 G2 box; other site 1131462005802 G3 box; other site 1131462005803 Switch II region; other site 1131462005804 G4 box; other site 1131462005805 G5 box; other site 1131462005806 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 1131462005807 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1131462005808 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 1131462005809 metal-binding site [ion binding] 1131462005810 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1131462005811 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1131462005812 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 1131462005813 dimerization interface [polypeptide binding]; other site 1131462005814 putative DNA binding site [nucleotide binding]; other site 1131462005815 putative Zn2+ binding site [ion binding]; other site 1131462005816 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 1131462005817 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1131462005818 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 1131462005819 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1131462005820 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1131462005821 hypothetical protein; Reviewed; Region: PRK12497 1131462005822 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 1131462005823 L-aspartate oxidase; Provisional; Region: PRK06175 1131462005824 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1131462005825 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1131462005826 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 1131462005827 ligand binding site [chemical binding]; other site 1131462005828 flexible hinge region; other site 1131462005829 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1131462005830 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1131462005831 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1131462005832 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 1131462005833 Walker A motif; other site 1131462005834 ATP binding site [chemical binding]; other site 1131462005835 Walker B motif; other site 1131462005836 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1131462005837 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462005838 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1131462005839 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1131462005840 RNA/DNA hybrid binding site [nucleotide binding]; other site 1131462005841 active site 1131462005842 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 1131462005843 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1131462005844 GTP/Mg2+ binding site [chemical binding]; other site 1131462005845 G4 box; other site 1131462005846 G5 box; other site 1131462005847 G1 box; other site 1131462005848 Switch I region; other site 1131462005849 G2 box; other site 1131462005850 G3 box; other site 1131462005851 Switch II region; other site 1131462005852 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1131462005853 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1131462005854 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 1131462005855 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1131462005856 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1131462005857 RimM N-terminal domain; Region: RimM; pfam01782 1131462005858 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1131462005859 hypothetical protein; Provisional; Region: PRK00468 1131462005860 G-X-X-G motif; other site 1131462005861 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1131462005862 signal recognition particle protein; Provisional; Region: PRK10867 1131462005863 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1131462005864 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 1131462005865 P loop; other site 1131462005866 GTP binding site [chemical binding]; other site 1131462005867 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1131462005868 putative DNA-binding protein; Validated; Region: PRK00118 1131462005869 Vitamin K epoxide reductase (VKOR) family; Region: VKOR; cl01729 1131462005870 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462005871 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462005872 metal binding site [ion binding]; metal-binding site 1131462005873 active site 1131462005874 I-site; other site 1131462005875 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 1131462005876 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 1131462005877 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 1131462005878 active site 1131462005879 putative substrate binding pocket [chemical binding]; other site 1131462005880 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 1131462005881 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1131462005882 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1131462005883 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1131462005884 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1131462005885 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 1131462005886 P loop; other site 1131462005887 GTP binding site [chemical binding]; other site 1131462005888 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1131462005889 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1131462005890 Walker A/P-loop; other site 1131462005891 ATP binding site [chemical binding]; other site 1131462005892 Q-loop/lid; other site 1131462005893 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1131462005894 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1131462005895 ABC transporter signature motif; other site 1131462005896 Walker B; other site 1131462005897 D-loop; other site 1131462005898 H-loop/switch region; other site 1131462005899 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 1131462005900 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 1131462005901 dimerization interface [polypeptide binding]; other site 1131462005902 active site 1131462005903 metal binding site [ion binding]; metal-binding site 1131462005904 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 1131462005905 dsRNA binding site [nucleotide binding]; other site 1131462005906 acyl carrier protein; Provisional; Region: acpP; PRK00982 1131462005907 putative phosphate acyltransferase; Provisional; Region: PRK05331 1131462005908 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1131462005909 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1131462005910 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1131462005911 propionate/acetate kinase; Provisional; Region: PRK12379 1131462005912 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 1131462005913 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1131462005914 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1131462005915 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 1131462005916 S-adenosylmethionine binding site [chemical binding]; other site 1131462005917 germination protease; Provisional; Region: PRK12362 1131462005918 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1131462005919 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 1131462005920 generic binding surface II; other site 1131462005921 ssDNA binding site; other site 1131462005922 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 1131462005923 ATP binding site [chemical binding]; other site 1131462005924 putative Mg++ binding site [ion binding]; other site 1131462005925 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 1131462005926 nucleotide binding region [chemical binding]; other site 1131462005927 ATP-binding site [chemical binding]; other site 1131462005928 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1131462005929 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1131462005930 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1131462005931 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1131462005932 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1131462005933 putative L-serine binding site [chemical binding]; other site 1131462005934 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1131462005935 DAK2 domain; Region: Dak2; pfam02734 1131462005936 Asp23 family; Region: Asp23; pfam03780 1131462005937 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1131462005938 Thiamine pyrophosphokinase; Region: TPK; cd07995 1131462005939 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1131462005940 active site 1131462005941 dimerization interface [polypeptide binding]; other site 1131462005942 thiamine binding site [chemical binding]; other site 1131462005943 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1131462005944 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 1131462005945 substrate binding site [chemical binding]; other site 1131462005946 hexamer interface [polypeptide binding]; other site 1131462005947 metal binding site [ion binding]; metal-binding site 1131462005948 GTPase RsgA; Reviewed; Region: PRK00098 1131462005949 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 1131462005950 RNA binding site [nucleotide binding]; other site 1131462005951 homodimer interface [polypeptide binding]; other site 1131462005952 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1131462005953 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1131462005954 GTP/Mg2+ binding site [chemical binding]; other site 1131462005955 G4 box; other site 1131462005956 G5 box; other site 1131462005957 G1 box; other site 1131462005958 Switch I region; other site 1131462005959 G2 box; other site 1131462005960 G3 box; other site 1131462005961 Switch II region; other site 1131462005962 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1131462005963 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1131462005964 active site 1131462005965 ATP binding site [chemical binding]; other site 1131462005966 substrate binding site [chemical binding]; other site 1131462005967 activation loop (A-loop); other site 1131462005968 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1131462005969 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1131462005970 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1131462005971 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1131462005972 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1131462005973 Protein phosphatase 2C; Region: PP2C; pfam00481 1131462005974 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 1131462005975 active site 1131462005976 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1131462005977 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1131462005978 phosphopeptide binding site; other site 1131462005979 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 1131462005980 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1131462005981 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1131462005982 phosphopeptide binding site; other site 1131462005983 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1131462005984 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 1131462005985 FeS/SAM binding site; other site 1131462005986 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1131462005987 NusB family; Region: NusB; pfam01029 1131462005988 putative RNA binding site [nucleotide binding]; other site 1131462005989 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 1131462005990 S-adenosylmethionine binding site [chemical binding]; other site 1131462005991 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 1131462005992 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1131462005993 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1131462005994 putative active site [active] 1131462005995 substrate binding site [chemical binding]; other site 1131462005996 putative cosubstrate binding site; other site 1131462005997 catalytic site [active] 1131462005998 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1131462005999 substrate binding site [chemical binding]; other site 1131462006000 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 1131462006001 active site 1131462006002 catalytic residues [active] 1131462006003 metal binding site [ion binding]; metal-binding site 1131462006004 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1131462006005 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 1131462006006 ATP binding site [chemical binding]; other site 1131462006007 putative Mg++ binding site [ion binding]; other site 1131462006008 nucleotide binding region [chemical binding]; other site 1131462006009 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 1131462006010 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1131462006011 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 1131462006012 S-adenosylmethionine binding site [chemical binding]; other site 1131462006013 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 1131462006014 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 1131462006015 FAD binding site [chemical binding]; other site 1131462006016 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1131462006017 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1131462006018 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1131462006019 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1131462006020 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1131462006021 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 1131462006022 purine monophosphate binding site [chemical binding]; other site 1131462006023 dimer interface [polypeptide binding]; other site 1131462006024 putative catalytic residues [active] 1131462006025 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1131462006026 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1131462006027 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1131462006028 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1131462006029 active site 1131462006030 substrate binding site [chemical binding]; other site 1131462006031 cosubstrate binding site; other site 1131462006032 catalytic site [active] 1131462006033 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1131462006034 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 1131462006035 dimerization interface [polypeptide binding]; other site 1131462006036 putative ATP binding site [chemical binding]; other site 1131462006037 amidophosphoribosyltransferase; Provisional; Region: PRK05793 1131462006038 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 1131462006039 active site 1131462006040 tetramer interface [polypeptide binding]; other site 1131462006041 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1131462006042 active site 1131462006043 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1131462006044 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1131462006045 ATP binding site [chemical binding]; other site 1131462006046 active site 1131462006047 substrate binding site [chemical binding]; other site 1131462006048 adenylosuccinate lyase; Provisional; Region: PRK07492 1131462006049 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1131462006050 tetramer interface [polypeptide binding]; other site 1131462006051 active site 1131462006052 AIR carboxylase; Region: AIRC; pfam00731 1131462006053 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1131462006054 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462006055 Zn2+ binding site [ion binding]; other site 1131462006056 Mg2+ binding site [ion binding]; other site 1131462006057 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1131462006058 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1131462006059 Walker A/P-loop; other site 1131462006060 ATP binding site [chemical binding]; other site 1131462006061 Q-loop/lid; other site 1131462006062 ABC transporter signature motif; other site 1131462006063 Walker B; other site 1131462006064 D-loop; other site 1131462006065 H-loop/switch region; other site 1131462006066 Predicted transcriptional regulators [Transcription]; Region: COG1725 1131462006067 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1131462006068 DNA-binding site [nucleotide binding]; DNA binding site 1131462006069 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 1131462006070 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 1131462006071 ligand binding site [chemical binding]; other site 1131462006072 flexible hinge region; other site 1131462006073 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 1131462006074 putative switch regulator; other site 1131462006075 non-specific DNA interactions [nucleotide binding]; other site 1131462006076 DNA binding site [nucleotide binding] 1131462006077 sequence specific DNA binding site [nucleotide binding]; other site 1131462006078 putative cAMP binding site [chemical binding]; other site 1131462006079 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1131462006080 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1131462006081 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1131462006082 reductive dehalogenase; Region: RDH; TIGR02486 1131462006083 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462006084 dipeptidase PepV; Reviewed; Region: PRK07318 1131462006085 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1131462006086 active site 1131462006087 metal binding site [ion binding]; metal-binding site 1131462006088 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1131462006089 Ferredoxin [Energy production and conversion]; Region: COG1146 1131462006090 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 1131462006091 active site 1131462006092 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1131462006093 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1131462006094 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 1131462006095 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1131462006096 catalytic residue [active] 1131462006097 Cupin domain; Region: Cupin_2; pfam07883 1131462006098 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 1131462006099 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1131462006100 Prephenate dehydratase; Region: PDT; pfam00800 1131462006101 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 1131462006102 putative L-Phe binding site [chemical binding]; other site 1131462006103 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1131462006104 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1131462006105 Tetramer interface [polypeptide binding]; other site 1131462006106 active site 1131462006107 FMN-binding site [chemical binding]; other site 1131462006108 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1131462006109 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 1131462006110 hinge; other site 1131462006111 active site 1131462006112 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 1131462006113 prephenate dehydrogenase; Validated; Region: PRK08507 1131462006114 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 1131462006115 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 1131462006116 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 1131462006117 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 1131462006118 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1131462006119 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1131462006120 ABC-ATPase subunit interface; other site 1131462006121 dimer interface [polypeptide binding]; other site 1131462006122 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1131462006123 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1131462006124 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 1131462006125 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1131462006126 intersubunit interface [polypeptide binding]; other site 1131462006127 ferric uptake regulator; Provisional; Region: fur; PRK09462 1131462006128 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1131462006129 metal binding site 2 [ion binding]; metal-binding site 1131462006130 putative DNA binding helix; other site 1131462006131 metal binding site 1 [ion binding]; metal-binding site 1131462006132 dimer interface [polypeptide binding]; other site 1131462006133 structural Zn2+ binding site [ion binding]; other site 1131462006134 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1131462006135 Family description; Region: UvrD_C_2; pfam13538 1131462006136 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1131462006137 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 1131462006138 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1131462006139 Nucleoside Triphosphate Pyrophosphohydrolase EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u6; cd11543 1131462006140 2-ketoisovalerate ferredoxin oxidoreductase subunit delta; Reviewed; Region: vorD; PRK09623 1131462006141 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 1131462006142 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1131462006143 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1131462006144 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 1131462006145 NADH dehydrogenase; Region: NADHdh; cl00469 1131462006146 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1131462006147 putative oxidoreductase; Provisional; Region: PRK12831 1131462006148 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1131462006149 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1131462006150 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 1131462006151 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 1131462006152 FAD binding pocket [chemical binding]; other site 1131462006153 FAD binding motif [chemical binding]; other site 1131462006154 phosphate binding motif [ion binding]; other site 1131462006155 beta-alpha-beta structure motif; other site 1131462006156 NAD binding pocket [chemical binding]; other site 1131462006157 Iron coordination center [ion binding]; other site 1131462006158 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1131462006159 classical (c) SDRs; Region: SDR_c; cd05233 1131462006160 NAD(P) binding site [chemical binding]; other site 1131462006161 active site 1131462006162 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1131462006163 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1131462006164 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 1131462006165 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1131462006166 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 1131462006167 ATP binding site [chemical binding]; other site 1131462006168 putative Mg++ binding site [ion binding]; other site 1131462006169 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 1131462006170 nucleotide binding region [chemical binding]; other site 1131462006171 ATP-binding site [chemical binding]; other site 1131462006172 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1131462006173 HRDC domain; Region: HRDC; pfam00570 1131462006174 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 1131462006175 Penicillinase repressor; Region: Pencillinase_R; cl17580 1131462006176 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1131462006177 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1131462006178 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1131462006179 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1131462006180 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1131462006181 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1131462006182 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462006183 Walker A/P-loop; other site 1131462006184 ATP binding site [chemical binding]; other site 1131462006185 Q-loop/lid; other site 1131462006186 ABC transporter signature motif; other site 1131462006187 Walker B; other site 1131462006188 D-loop; other site 1131462006189 H-loop/switch region; other site 1131462006190 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 1131462006191 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 1131462006192 Peptidase family M50; Region: Peptidase_M50; pfam02163 1131462006193 active site 1131462006194 putative substrate binding region [chemical binding]; other site 1131462006195 Cupin domain; Region: Cupin_2; cl17218 1131462006196 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 1131462006197 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 1131462006198 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1131462006199 Cation efflux family; Region: Cation_efflux; cl00316 1131462006200 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1131462006201 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1131462006202 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1131462006203 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1131462006204 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1131462006205 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1131462006206 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1131462006207 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 1131462006208 Amino acid permease; Region: AA_permease_2; pfam13520 1131462006209 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1131462006210 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 1131462006211 active site 1131462006212 phosphorylation site [posttranslational modification] 1131462006213 intermolecular recognition site; other site 1131462006214 dimerization interface [polypeptide binding]; other site 1131462006215 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 1131462006216 DNA binding site [nucleotide binding] 1131462006217 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1131462006218 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1131462006219 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1131462006220 Ligand Binding Site [chemical binding]; other site 1131462006221 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1131462006222 GAF domain; Region: GAF_3; pfam13492 1131462006223 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 1131462006224 dimer interface [polypeptide binding]; other site 1131462006225 phosphorylation site [posttranslational modification] 1131462006226 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 1131462006227 ATP binding site [chemical binding]; other site 1131462006228 Mg2+ binding site [ion binding]; other site 1131462006229 G-X-G motif; other site 1131462006230 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1131462006231 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 1131462006232 active site 1131462006233 phosphorylation site [posttranslational modification] 1131462006234 intermolecular recognition site; other site 1131462006235 dimerization interface [polypeptide binding]; other site 1131462006236 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 1131462006237 DNA binding site [nucleotide binding] 1131462006238 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1131462006239 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 1131462006240 ATP binding site [chemical binding]; other site 1131462006241 Mg2+ binding site [ion binding]; other site 1131462006242 G-X-G motif; other site 1131462006243 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1131462006244 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1131462006245 Walker A/P-loop; other site 1131462006246 ATP binding site [chemical binding]; other site 1131462006247 Q-loop/lid; other site 1131462006248 ABC transporter signature motif; other site 1131462006249 Walker B; other site 1131462006250 D-loop; other site 1131462006251 H-loop/switch region; other site 1131462006252 FtsX-like permease family; Region: FtsX; pfam02687 1131462006253 manganese transport transcriptional regulator; Provisional; Region: PRK03902 1131462006254 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1131462006255 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1131462006256 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 1131462006257 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1131462006258 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 1131462006259 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1131462006260 putative substrate translocation pore; other site 1131462006261 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1131462006262 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1131462006263 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1131462006264 Spore germination protein; Region: Spore_permease; cl17796 1131462006265 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 1131462006266 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1131462006267 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1131462006268 dimer interface [polypeptide binding]; other site 1131462006269 active site 1131462006270 metal binding site [ion binding]; metal-binding site 1131462006271 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 1131462006272 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 1131462006273 FeS/SAM binding site; other site 1131462006274 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1131462006275 Pyruvate formate lyase 1; Region: PFL1; cd01678 1131462006276 coenzyme A binding site [chemical binding]; other site 1131462006277 active site 1131462006278 catalytic residues [active] 1131462006279 glycine loop; other site 1131462006280 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1131462006281 active site 1131462006282 ATP binding site [chemical binding]; other site 1131462006283 substrate binding site [chemical binding]; other site 1131462006284 activation loop (A-loop); other site 1131462006285 Double zinc ribbon; Region: DZR; pfam12773 1131462006286 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 1131462006287 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1131462006288 Cation efflux family; Region: Cation_efflux; cl00316 1131462006289 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 1131462006290 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1131462006291 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 1131462006292 FAD binding pocket [chemical binding]; other site 1131462006293 FAD binding motif [chemical binding]; other site 1131462006294 phosphate binding motif [ion binding]; other site 1131462006295 beta-alpha-beta structure motif; other site 1131462006296 NAD binding pocket [chemical binding]; other site 1131462006297 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 1131462006298 homodimer interface [polypeptide binding]; other site 1131462006299 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1131462006300 substrate-cofactor binding pocket; other site 1131462006301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462006302 catalytic residue [active] 1131462006303 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1131462006304 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1131462006305 glutamine binding [chemical binding]; other site 1131462006306 catalytic triad [active] 1131462006307 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1131462006308 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1131462006309 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1131462006310 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1131462006311 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1131462006312 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1131462006313 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1131462006314 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1131462006315 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1131462006316 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1131462006317 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1131462006318 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 1131462006319 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1131462006320 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1131462006321 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 1131462006322 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1131462006323 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1131462006324 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1131462006325 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1131462006326 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1131462006327 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 1131462006328 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 1131462006329 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 1131462006330 non-heme iron binding site [ion binding]; other site 1131462006331 dimer interface [polypeptide binding]; other site 1131462006332 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 1131462006333 non-heme iron binding site [ion binding]; other site 1131462006334 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1131462006335 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1131462006336 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1131462006337 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 1131462006338 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1131462006339 GAF domain; Region: GAF; pfam01590 1131462006340 Rubrerythrin [Energy production and conversion]; Region: COG1592 1131462006341 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1131462006342 binuclear metal center [ion binding]; other site 1131462006343 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 1131462006344 iron binding site [ion binding]; other site 1131462006345 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 1131462006346 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1131462006347 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1131462006348 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1131462006349 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1131462006350 Accessory gene regulator B; Region: AgrB; pfam04647 1131462006351 sensory histidine kinase AtoS; Provisional; Region: PRK11360 1131462006352 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 1131462006353 putative active site [active] 1131462006354 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 1131462006355 dimer interface [polypeptide binding]; other site 1131462006356 phosphorylation site [posttranslational modification] 1131462006357 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 1131462006358 ATP binding site [chemical binding]; other site 1131462006359 Mg2+ binding site [ion binding]; other site 1131462006360 G-X-G motif; other site 1131462006361 pyruvate carboxylase; Reviewed; Region: PRK12999 1131462006362 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1131462006363 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1131462006364 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1131462006365 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1131462006366 active site 1131462006367 catalytic residues [active] 1131462006368 metal binding site [ion binding]; metal-binding site 1131462006369 homodimer binding site [polypeptide binding]; other site 1131462006370 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 1131462006371 carboxyltransferase (CT) interaction site; other site 1131462006372 biotinylation site [posttranslational modification]; other site 1131462006373 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1131462006374 putative CheW interface [polypeptide binding]; other site 1131462006375 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1131462006376 Peptidase family M23; Region: Peptidase_M23; pfam01551 1131462006377 chromosome segregation protein; Provisional; Region: PRK01156 1131462006378 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1131462006379 Predicted transcriptional regulator [Transcription]; Region: COG2932 1131462006380 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 1131462006381 non-specific DNA binding site [nucleotide binding]; other site 1131462006382 salt bridge; other site 1131462006383 sequence-specific DNA binding site [nucleotide binding]; other site 1131462006384 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 1131462006385 Catalytic site [active] 1131462006386 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 1131462006387 FAD binding site [chemical binding]; other site 1131462006388 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1131462006389 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1131462006390 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1131462006391 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1131462006392 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1131462006393 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1131462006394 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 1131462006395 IMP binding site; other site 1131462006396 dimer interface [polypeptide binding]; other site 1131462006397 partial ornithine binding site; other site 1131462006398 Response regulator receiver domain; Region: Response_reg; pfam00072 1131462006399 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 1131462006400 active site 1131462006401 phosphorylation site [posttranslational modification] 1131462006402 intermolecular recognition site; other site 1131462006403 dimerization interface [polypeptide binding]; other site 1131462006404 PAS fold; Region: PAS; pfam00989 1131462006405 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 1131462006406 putative active site [active] 1131462006407 heme pocket [chemical binding]; other site 1131462006408 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1131462006409 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 1131462006410 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1131462006411 putative active site [active] 1131462006412 heme pocket [chemical binding]; other site 1131462006413 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 1131462006414 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1131462006415 putative active site [active] 1131462006416 heme pocket [chemical binding]; other site 1131462006417 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1131462006418 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 1131462006419 putative active site [active] 1131462006420 heme pocket [chemical binding]; other site 1131462006421 PAS domain; Region: PAS; smart00091 1131462006422 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 1131462006423 putative active site [active] 1131462006424 heme pocket [chemical binding]; other site 1131462006425 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 1131462006426 dimer interface [polypeptide binding]; other site 1131462006427 phosphorylation site [posttranslational modification] 1131462006428 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 1131462006429 ATP binding site [chemical binding]; other site 1131462006430 Mg2+ binding site [ion binding]; other site 1131462006431 G-X-G motif; other site 1131462006432 Response regulator receiver domain; Region: Response_reg; pfam00072 1131462006433 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 1131462006434 active site 1131462006435 phosphorylation site [posttranslational modification] 1131462006436 intermolecular recognition site; other site 1131462006437 dimerization interface [polypeptide binding]; other site 1131462006438 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1131462006439 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 1131462006440 active site 1131462006441 phosphorylation site [posttranslational modification] 1131462006442 intermolecular recognition site; other site 1131462006443 dimerization interface [polypeptide binding]; other site 1131462006444 CheB methylesterase; Region: CheB_methylest; pfam01339 1131462006445 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1131462006446 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1131462006447 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1131462006448 CHASE3 domain; Region: CHASE3; cl05000 1131462006449 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1131462006450 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 1131462006451 dimerization interface [polypeptide binding]; other site 1131462006452 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1131462006453 dimer interface [polypeptide binding]; other site 1131462006454 putative CheW interface [polypeptide binding]; other site 1131462006455 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1131462006456 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1131462006457 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 1131462006458 putative binding surface; other site 1131462006459 active site 1131462006460 P2 response regulator binding domain; Region: P2; pfam07194 1131462006461 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1131462006462 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 1131462006463 ATP binding site [chemical binding]; other site 1131462006464 Mg2+ binding site [ion binding]; other site 1131462006465 G-X-G motif; other site 1131462006466 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 1131462006467 Response regulator receiver domain; Region: Response_reg; pfam00072 1131462006468 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 1131462006469 active site 1131462006470 phosphorylation site [posttranslational modification] 1131462006471 intermolecular recognition site; other site 1131462006472 dimerization interface [polypeptide binding]; other site 1131462006473 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1131462006474 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1131462006475 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1131462006476 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 1131462006477 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1131462006478 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 1131462006479 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1131462006480 Walker A/P-loop; other site 1131462006481 ATP binding site [chemical binding]; other site 1131462006482 Q-loop/lid; other site 1131462006483 ABC transporter signature motif; other site 1131462006484 Walker B; other site 1131462006485 D-loop; other site 1131462006486 H-loop/switch region; other site 1131462006487 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 1131462006488 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1131462006489 Walker A/P-loop; other site 1131462006490 ATP binding site [chemical binding]; other site 1131462006491 Q-loop/lid; other site 1131462006492 ABC transporter signature motif; other site 1131462006493 Walker B; other site 1131462006494 D-loop; other site 1131462006495 H-loop/switch region; other site 1131462006496 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 1131462006497 active site 1131462006498 metal binding site [ion binding]; metal-binding site 1131462006499 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1131462006500 Spore germination protein; Region: Spore_permease; cl17796 1131462006501 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1131462006502 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1131462006503 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1131462006504 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1131462006505 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1131462006506 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1131462006507 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1131462006508 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1131462006509 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 1131462006510 IMP binding site; other site 1131462006511 dimer interface [polypeptide binding]; other site 1131462006512 interdomain contacts; other site 1131462006513 partial ornithine binding site; other site 1131462006514 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1131462006515 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1131462006516 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1131462006517 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1131462006518 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1131462006519 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1131462006520 catalytic site [active] 1131462006521 subunit interface [polypeptide binding]; other site 1131462006522 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 1131462006523 active site 1131462006524 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 1131462006525 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1131462006526 active site 1131462006527 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 1131462006528 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1131462006529 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1131462006530 Walker A/P-loop; other site 1131462006531 ATP binding site [chemical binding]; other site 1131462006532 Q-loop/lid; other site 1131462006533 ABC transporter signature motif; other site 1131462006534 Walker B; other site 1131462006535 D-loop; other site 1131462006536 H-loop/switch region; other site 1131462006537 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1131462006538 active site 1131462006539 DNA polymerase IV; Validated; Region: PRK02406 1131462006540 DNA binding site [nucleotide binding] 1131462006541 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1131462006542 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 1131462006543 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1131462006544 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1131462006545 ApbE family; Region: ApbE; pfam02424 1131462006546 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 1131462006547 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 1131462006548 reductive dehalogenase; Region: RDH; TIGR02486 1131462006549 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462006550 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1131462006551 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1131462006552 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1131462006553 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1131462006554 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1131462006555 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1131462006556 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 1131462006557 B12 binding site [chemical binding]; other site 1131462006558 reductive dehalogenase; Region: RDH; TIGR02486 1131462006559 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462006560 reductive dehalogenase; Region: RDH; TIGR02486 1131462006561 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462006562 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1131462006563 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 1131462006564 ligand binding site [chemical binding]; other site 1131462006565 flexible hinge region; other site 1131462006566 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; cl17320 1131462006567 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1131462006568 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1131462006569 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1131462006570 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 1131462006571 FMN-binding domain; Region: FMN_bind; pfam04205 1131462006572 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1131462006573 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462006574 reductive dehalogenase; Region: RDH; TIGR02486 1131462006575 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1131462006576 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 1131462006577 ligand binding site [chemical binding]; other site 1131462006578 flexible hinge region; other site 1131462006579 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1131462006580 FMN-binding domain; Region: FMN_bind; pfam04205 1131462006581 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1131462006582 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462006583 reductive dehalogenase; Region: RDH; TIGR02486 1131462006584 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; cl17320 1131462006585 Transposase domain (DUF772); Region: DUF772; pfam05598 1131462006586 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1131462006587 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 1131462006588 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1131462006589 ligand binding site [chemical binding]; other site 1131462006590 flexible hinge region; other site 1131462006591 FMN-binding domain; Region: FMN_bind; pfam04205 1131462006592 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1131462006593 reductive dehalogenase; Region: RDH; TIGR02486 1131462006594 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462006595 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1131462006596 Transposase; Region: HTH_Tnp_1; cl17663 1131462006597 putative transposase OrfB; Reviewed; Region: PHA02517 1131462006598 HTH-like domain; Region: HTH_21; pfam13276 1131462006599 Integrase core domain; Region: rve; pfam00665 1131462006600 Integrase core domain; Region: rve_3; pfam13683 1131462006601 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1131462006602 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 1131462006603 ligand binding site [chemical binding]; other site 1131462006604 flexible hinge region; other site 1131462006605 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1131462006606 reductive dehalogenase; Region: RDH; TIGR02486 1131462006607 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 1131462006608 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 1131462006609 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1131462006610 ligand binding site [chemical binding]; other site 1131462006611 flexible hinge region; other site 1131462006612 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; cl17320 1131462006613 hypothetical protein; Provisional; Region: PRK11770 1131462006614 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1131462006615 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1131462006616 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1131462006617 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1131462006618 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1131462006619 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1131462006620 RDD family; Region: RDD; pfam06271 1131462006621 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1131462006622 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1131462006623 tandem repeat interface [polypeptide binding]; other site 1131462006624 oligomer interface [polypeptide binding]; other site 1131462006625 active site residues [active] 1131462006626 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1131462006627 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1131462006628 DNA binding residues [nucleotide binding] 1131462006629 drug binding residues [chemical binding]; other site 1131462006630 dimer interface [polypeptide binding]; other site 1131462006631 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 1131462006632 OxaA-like protein precursor; Provisional; Region: PRK02463 1131462006633 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 1131462006634 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 1131462006635 active site 1131462006636 catalytic tetrad [active] 1131462006637 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 1131462006638 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462006639 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462006640 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462006641 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 1131462006642 amidase catalytic site [active] 1131462006643 Zn binding residues [ion binding]; other site 1131462006644 substrate binding site [chemical binding]; other site 1131462006645 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 1131462006646 Predicted transcriptional regulator [Transcription]; Region: COG2378 1131462006647 HTH domain; Region: HTH_11; pfam08279 1131462006648 WYL domain; Region: WYL; pfam13280 1131462006649 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1131462006650 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1131462006651 active site 1131462006652 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 1131462006653 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1131462006654 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1131462006655 putative active site [active] 1131462006656 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 1131462006657 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1131462006658 NAD(P) binding site [chemical binding]; other site 1131462006659 catalytic residues [active] 1131462006660 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1131462006661 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1131462006662 A new structural DNA glycosylase; Region: AlkD_like; cd06561 1131462006663 active site 1131462006664 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 1131462006665 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1131462006666 B12 binding site [chemical binding]; other site 1131462006667 Sensory domain found in PocR; Region: PocR; pfam10114 1131462006668 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1131462006669 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1131462006670 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1131462006671 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1131462006672 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1131462006673 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 1131462006674 B12 binding site [chemical binding]; other site 1131462006675 cobalt ligand [ion binding]; other site 1131462006676 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 1131462006677 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1131462006678 substrate binding pocket [chemical binding]; other site 1131462006679 dimer interface [polypeptide binding]; other site 1131462006680 inhibitor binding site; inhibition site 1131462006681 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 1131462006682 Uncharacterized conserved protein [Function unknown]; Region: COG2433 1131462006683 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 1131462006684 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1131462006685 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 1131462006686 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1131462006687 FeS/SAM binding site; other site 1131462006688 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 1131462006689 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 1131462006690 Rubredoxin; Region: Rubredoxin; pfam00301 1131462006691 iron binding site [ion binding]; other site 1131462006692 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 1131462006693 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1131462006694 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1131462006695 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1131462006696 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 1131462006697 dimer interface [polypeptide binding]; other site 1131462006698 phosphorylation site [posttranslational modification] 1131462006699 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 1131462006700 ATP binding site [chemical binding]; other site 1131462006701 Mg2+ binding site [ion binding]; other site 1131462006702 G-X-G motif; other site 1131462006703 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 1131462006704 putative binding surface; other site 1131462006705 active site 1131462006706 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1131462006707 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 1131462006708 active site 1131462006709 phosphorylation site [posttranslational modification] 1131462006710 intermolecular recognition site; other site 1131462006711 dimerization interface [polypeptide binding]; other site 1131462006712 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1131462006713 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 1131462006714 active site 1131462006715 phosphorylation site [posttranslational modification] 1131462006716 intermolecular recognition site; other site 1131462006717 dimerization interface [polypeptide binding]; other site 1131462006718 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 1131462006719 DNA binding site [nucleotide binding] 1131462006720 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1131462006721 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 1131462006722 active site 1131462006723 phosphorylation site [posttranslational modification] 1131462006724 intermolecular recognition site; other site 1131462006725 dimerization interface [polypeptide binding]; other site 1131462006726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 1131462006727 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1131462006728 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1131462006729 Walker A/P-loop; other site 1131462006730 ATP binding site [chemical binding]; other site 1131462006731 Q-loop/lid; other site 1131462006732 ABC transporter signature motif; other site 1131462006733 Walker B; other site 1131462006734 D-loop; other site 1131462006735 H-loop/switch region; other site 1131462006736 Predicted transcriptional regulators [Transcription]; Region: COG1725 1131462006737 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1131462006738 DNA-binding site [nucleotide binding]; DNA binding site 1131462006739 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1131462006740 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1131462006741 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1131462006742 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462006743 Walker A/P-loop; other site 1131462006744 ATP binding site [chemical binding]; other site 1131462006745 Q-loop/lid; other site 1131462006746 ABC transporter signature motif; other site 1131462006747 Walker B; other site 1131462006748 D-loop; other site 1131462006749 H-loop/switch region; other site 1131462006750 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 1131462006751 dimer interface [polypeptide binding]; other site 1131462006752 phosphorylation site [posttranslational modification] 1131462006753 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 1131462006754 ATP binding site [chemical binding]; other site 1131462006755 Mg2+ binding site [ion binding]; other site 1131462006756 G-X-G motif; other site 1131462006757 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1131462006758 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 1131462006759 active site 1131462006760 phosphorylation site [posttranslational modification] 1131462006761 intermolecular recognition site; other site 1131462006762 dimerization interface [polypeptide binding]; other site 1131462006763 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 1131462006764 DNA binding site [nucleotide binding] 1131462006765 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 1131462006766 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 1131462006767 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 1131462006768 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1131462006769 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1131462006770 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 1131462006771 BRO family, N-terminal domain; Region: Bro-N; pfam02498 1131462006772 Predicted transcriptional regulator [Transcription]; Region: COG2378 1131462006773 HTH domain; Region: HTH_11; pfam08279 1131462006774 WYL domain; Region: WYL; pfam13280 1131462006775 Isochorismatase family; Region: Isochorismatase; pfam00857 1131462006776 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1131462006777 catalytic triad [active] 1131462006778 conserved cis-peptide bond; other site 1131462006779 Virulence protein [General function prediction only]; Region: COG3943 1131462006780 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1131462006781 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1131462006782 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1131462006783 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 1131462006784 non-specific DNA binding site [nucleotide binding]; other site 1131462006785 salt bridge; other site 1131462006786 sequence-specific DNA binding site [nucleotide binding]; other site 1131462006787 PLD-like domain; Region: PLDc_2; pfam13091 1131462006788 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 1131462006789 putative homodimer interface [polypeptide binding]; other site 1131462006790 putative active site [active] 1131462006791 catalytic site [active] 1131462006792 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 1131462006793 ATP binding site [chemical binding]; other site 1131462006794 Mg2+ binding site [ion binding]; other site 1131462006795 G-X-G motif; other site 1131462006796 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1131462006797 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 1131462006798 ATP binding site [chemical binding]; other site 1131462006799 putative Mg++ binding site [ion binding]; other site 1131462006800 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 1131462006801 nucleotide binding region [chemical binding]; other site 1131462006802 ATP-binding site [chemical binding]; other site 1131462006803 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1131462006804 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 1131462006805 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1131462006806 catalytic residue [active] 1131462006807 DNA-sulfur modification-associated; Region: DndB; pfam14072 1131462006808 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 1131462006809 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 1131462006810 hypothetical protein; Provisional; Region: PRK13795 1131462006811 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 1131462006812 Active Sites [active] 1131462006813 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 1131462006814 non-specific DNA binding site [nucleotide binding]; other site 1131462006815 salt bridge; other site 1131462006816 sequence-specific DNA binding site [nucleotide binding]; other site 1131462006817 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1131462006818 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1131462006819 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1131462006820 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1131462006821 DNA binding residues [nucleotide binding] 1131462006822 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 1131462006823 active site 1131462006824 8-oxo-dGMP binding site [chemical binding]; other site 1131462006825 nudix motif; other site 1131462006826 metal binding site [ion binding]; metal-binding site 1131462006827 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 1131462006828 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1131462006829 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 1131462006830 active site 1131462006831 8-oxo-dGMP binding site [chemical binding]; other site 1131462006832 nudix motif; other site 1131462006833 metal binding site [ion binding]; metal-binding site 1131462006834 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 1131462006835 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 1131462006836 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 1131462006837 CDGSH-type zinc finger. Function unknown; Region: ZnF_CDGSH; smart00704 1131462006838 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1131462006839 Part of AAA domain; Region: AAA_19; pfam13245 1131462006840 Family description; Region: UvrD_C_2; pfam13538 1131462006841 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462006842 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462006843 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462006844 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1131462006845 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1131462006846 putative active site [active] 1131462006847 putative NTP binding site [chemical binding]; other site 1131462006848 putative nucleic acid binding site [nucleotide binding]; other site 1131462006849 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1131462006850 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1131462006851 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1131462006852 putative active site [active] 1131462006853 putative NTP binding site [chemical binding]; other site 1131462006854 putative nucleic acid binding site [nucleotide binding]; other site 1131462006855 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1131462006856 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1131462006857 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1131462006858 SelR domain; Region: SelR; pfam01641 1131462006859 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462006860 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462006861 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 1131462006862 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 1131462006863 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 1131462006864 putative FMN binding site [chemical binding]; other site 1131462006865 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1131462006866 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462006867 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462006868 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 1131462006869 Predicted ATPase [General function prediction only]; Region: COG3910 1131462006870 ATP-binding cassette domain of non-transporter proteins; Region: ABC_Class2; cd03227 1131462006871 Walker A/P-loop; other site 1131462006872 ATP binding site [chemical binding]; other site 1131462006873 Q-loop/lid; other site 1131462006874 ABC transporter signature motif; other site 1131462006875 Walker B; other site 1131462006876 D-loop; other site 1131462006877 H-loop/switch region; other site 1131462006878 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1131462006879 dinuclear metal binding motif [ion binding]; other site 1131462006880 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 1131462006881 Predicted transcriptional regulators [Transcription]; Region: COG1695 1131462006882 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1131462006883 Membrane protein of unknown function; Region: DUF360; pfam04020 1131462006884 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 1131462006885 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1131462006886 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1131462006887 SWIM zinc finger; Region: SWIM; pfam04434 1131462006888 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1131462006889 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1131462006890 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 1131462006891 ATP binding site [chemical binding]; other site 1131462006892 putative Mg++ binding site [ion binding]; other site 1131462006893 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 1131462006894 nucleotide binding region [chemical binding]; other site 1131462006895 ATP-binding site [chemical binding]; other site 1131462006896 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1131462006897 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1131462006898 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462006899 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462006900 metal binding site [ion binding]; metal-binding site 1131462006901 active site 1131462006902 I-site; other site 1131462006903 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 1131462006904 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 1131462006905 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 1131462006906 active site 1131462006907 catalytic tetrad [active] 1131462006908 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 1131462006909 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1131462006910 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1131462006911 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 1131462006912 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1131462006913 putative active site [active] 1131462006914 putative metal binding site [ion binding]; other site 1131462006915 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 1131462006916 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 1131462006917 salt bridge; other site 1131462006918 non-specific DNA binding site [nucleotide binding]; other site 1131462006919 sequence-specific DNA binding site [nucleotide binding]; other site 1131462006920 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 1131462006921 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 1131462006922 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 1131462006923 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 1131462006924 HSP70 interaction site [polypeptide binding]; other site 1131462006925 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1131462006926 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1131462006927 Walker A/P-loop; other site 1131462006928 ATP binding site [chemical binding]; other site 1131462006929 Q-loop/lid; other site 1131462006930 ABC transporter signature motif; other site 1131462006931 Walker B; other site 1131462006932 D-loop; other site 1131462006933 H-loop/switch region; other site 1131462006934 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1131462006935 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1131462006936 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1131462006937 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1131462006938 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1131462006939 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1131462006940 MarR family; Region: MarR_2; pfam12802 1131462006941 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1131462006942 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1131462006943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1131462006944 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1131462006945 Family of unknown function (DUF633); Region: DUF633; pfam04816 1131462006946 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1131462006947 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1131462006948 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1131462006949 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1131462006950 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1131462006951 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 1131462006952 DNA binding residues [nucleotide binding] 1131462006953 DNA primase; Validated; Region: dnaG; PRK05667 1131462006954 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1131462006955 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1131462006956 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 1131462006957 active site 1131462006958 metal binding site [ion binding]; metal-binding site 1131462006959 interdomain interaction site; other site 1131462006960 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1131462006961 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1131462006962 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462006963 Zn2+ binding site [ion binding]; other site 1131462006964 Mg2+ binding site [ion binding]; other site 1131462006965 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1131462006966 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1131462006967 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1131462006968 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1131462006969 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1131462006970 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1131462006971 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 1131462006972 HTH domain; Region: HTH_11; pfam08279 1131462006973 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_4; cd04617 1131462006974 FOG: CBS domain [General function prediction only]; Region: COG0517 1131462006975 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1131462006976 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1131462006977 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 1131462006978 dimer interface [polypeptide binding]; other site 1131462006979 motif 1; other site 1131462006980 active site 1131462006981 motif 2; other site 1131462006982 motif 3; other site 1131462006983 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1131462006984 Recombination protein O N terminal; Region: RecO_N; pfam11967 1131462006985 Recombination protein O C terminal; Region: RecO_C; pfam02565 1131462006986 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1131462006987 intersubunit interface [polypeptide binding]; other site 1131462006988 active site 1131462006989 catalytic residue [active] 1131462006990 GTPase Era; Reviewed; Region: era; PRK00089 1131462006991 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1131462006992 G1 box; other site 1131462006993 GTP/Mg2+ binding site [chemical binding]; other site 1131462006994 Switch I region; other site 1131462006995 G2 box; other site 1131462006996 Switch II region; other site 1131462006997 G3 box; other site 1131462006998 G4 box; other site 1131462006999 G5 box; other site 1131462007000 KH domain; Region: KH_2; pfam07650 1131462007001 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1131462007002 active site 1131462007003 catalytic motif [active] 1131462007004 Zn binding site [ion binding]; other site 1131462007005 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 1131462007006 metal-binding heat shock protein; Provisional; Region: PRK00016 1131462007007 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 1131462007008 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 1131462007009 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462007010 Zn2+ binding site [ion binding]; other site 1131462007011 Mg2+ binding site [ion binding]; other site 1131462007012 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1131462007013 PhoH-like protein; Region: PhoH; pfam02562 1131462007014 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 1131462007015 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 1131462007016 YabP family; Region: YabP; cl06766 1131462007017 Yqey-like protein; Region: YqeY; pfam09424 1131462007018 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1131462007019 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 1131462007020 nucleotide binding site/active site [active] 1131462007021 HIT family signature motif; other site 1131462007022 catalytic residue [active] 1131462007023 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1131462007024 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1131462007025 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 1131462007026 FeS/SAM binding site; other site 1131462007027 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1131462007028 RNA methyltransferase, RsmE family; Region: TIGR00046 1131462007029 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 1131462007030 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 1131462007031 S-adenosylmethionine binding site [chemical binding]; other site 1131462007032 chaperone protein DnaJ; Provisional; Region: PRK10767 1131462007033 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 1131462007034 HSP70 interaction site [polypeptide binding]; other site 1131462007035 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1131462007036 substrate binding site [polypeptide binding]; other site 1131462007037 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1131462007038 Zn binding sites [ion binding]; other site 1131462007039 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1131462007040 dimer interface [polypeptide binding]; other site 1131462007041 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1131462007042 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1131462007043 nucleotide binding site [chemical binding]; other site 1131462007044 NEF interaction site [polypeptide binding]; other site 1131462007045 SBD interface [polypeptide binding]; other site 1131462007046 GrpE; Region: GrpE; pfam01025 1131462007047 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 1131462007048 dimer interface [polypeptide binding]; other site 1131462007049 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1131462007050 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1131462007051 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1131462007052 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1131462007053 MerR family regulatory protein; Region: MerR; pfam00376 1131462007054 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 1131462007055 HemN C-terminal domain; Region: HemN_C; pfam06969 1131462007056 GTP-binding protein LepA; Provisional; Region: PRK05433 1131462007057 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1131462007058 G1 box; other site 1131462007059 putative GEF interaction site [polypeptide binding]; other site 1131462007060 GTP/Mg2+ binding site [chemical binding]; other site 1131462007061 Switch I region; other site 1131462007062 G2 box; other site 1131462007063 G3 box; other site 1131462007064 Switch II region; other site 1131462007065 G4 box; other site 1131462007066 G5 box; other site 1131462007067 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 1131462007068 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 1131462007069 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1131462007070 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1131462007071 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1131462007072 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 1131462007073 stage II sporulation protein P; Region: spore_II_P; TIGR02867 1131462007074 Winged helix-turn helix; Region: HTH_29; pfam13551 1131462007075 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 1131462007076 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1131462007077 active site 1131462007078 HIGH motif; other site 1131462007079 nucleotide binding site [chemical binding]; other site 1131462007080 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1131462007081 active site 1131462007082 KMSKS motif; other site 1131462007083 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1131462007084 tRNA binding surface [nucleotide binding]; other site 1131462007085 anticodon binding site; other site 1131462007086 Helix-turn-helix domain; Region: HTH_17; pfam12728 1131462007087 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1131462007088 putative active site [active] 1131462007089 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1131462007090 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1131462007091 Walker A/P-loop; other site 1131462007092 ATP binding site [chemical binding]; other site 1131462007093 Q-loop/lid; other site 1131462007094 ABC transporter signature motif; other site 1131462007095 Walker B; other site 1131462007096 D-loop; other site 1131462007097 H-loop/switch region; other site 1131462007098 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1131462007099 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1131462007100 Walker A/P-loop; other site 1131462007101 ATP binding site [chemical binding]; other site 1131462007102 Q-loop/lid; other site 1131462007103 ABC transporter signature motif; other site 1131462007104 Walker B; other site 1131462007105 D-loop; other site 1131462007106 H-loop/switch region; other site 1131462007107 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 1131462007108 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1131462007109 TM-ABC transporter signature motif; other site 1131462007110 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 1131462007111 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1131462007112 TM-ABC transporter signature motif; other site 1131462007113 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1131462007114 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1131462007115 putative ligand binding site [chemical binding]; other site 1131462007116 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1131462007117 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1131462007118 DNA polymerase III, delta subunit; Region: holA; TIGR01128 1131462007119 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1131462007120 dimer interface [polypeptide binding]; other site 1131462007121 putative CheW interface [polypeptide binding]; other site 1131462007122 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1131462007123 active site 1131462007124 Competence protein; Region: Competence; pfam03772 1131462007125 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1131462007126 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1131462007127 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1131462007128 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1131462007129 SLBB domain; Region: SLBB; pfam10531 1131462007130 comEA protein; Region: comE; TIGR01259 1131462007131 Helix-hairpin-helix motif; Region: HHH; pfam00633 1131462007132 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1131462007133 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1131462007134 putative active site [active] 1131462007135 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1131462007136 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1131462007137 HIGH motif; other site 1131462007138 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1131462007139 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1131462007140 active site 1131462007141 KMSKS motif; other site 1131462007142 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1131462007143 tRNA binding surface [nucleotide binding]; other site 1131462007144 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1131462007145 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462007146 Zn2+ binding site [ion binding]; other site 1131462007147 Mg2+ binding site [ion binding]; other site 1131462007148 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 1131462007149 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1131462007150 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1131462007151 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1131462007152 active site 1131462007153 (T/H)XGH motif; other site 1131462007154 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1131462007155 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1131462007156 GTP1/OBG; Region: GTP1_OBG; pfam01018 1131462007157 Obg GTPase; Region: Obg; cd01898 1131462007158 G1 box; other site 1131462007159 GTP/Mg2+ binding site [chemical binding]; other site 1131462007160 Switch I region; other site 1131462007161 G2 box; other site 1131462007162 G3 box; other site 1131462007163 Switch II region; other site 1131462007164 G4 box; other site 1131462007165 G5 box; other site 1131462007166 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1131462007167 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1131462007168 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1131462007169 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1131462007170 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1131462007171 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 1131462007172 homodimer interface [polypeptide binding]; other site 1131462007173 oligonucleotide binding site [chemical binding]; other site 1131462007174 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 1131462007175 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 1131462007176 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 1131462007177 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 1131462007178 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1131462007179 B12 binding site [chemical binding]; other site 1131462007180 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 1131462007181 FeS/SAM binding site; other site 1131462007182 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1131462007183 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 1131462007184 DNA binding site [nucleotide binding] 1131462007185 active site 1131462007186 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1131462007187 dinuclear metal binding motif [ion binding]; other site 1131462007188 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 1131462007189 Peptidase family M50; Region: Peptidase_M50; pfam02163 1131462007190 active site 1131462007191 putative substrate binding region [chemical binding]; other site 1131462007192 Peptidase family M23; Region: Peptidase_M23; pfam01551 1131462007193 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1131462007194 Septum formation topological specificity factor MinE; Region: MinE; cl00538 1131462007195 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1131462007196 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1131462007197 Switch I; other site 1131462007198 Switch II; other site 1131462007199 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1131462007200 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1131462007201 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1131462007202 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1131462007203 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 1131462007204 rod shape-determining protein MreC; Provisional; Region: PRK13922 1131462007205 rod shape-determining protein MreC; Region: MreC; pfam04085 1131462007206 rod shape-determining protein MreB; Provisional; Region: PRK13927 1131462007207 MreB and similar proteins; Region: MreB_like; cd10225 1131462007208 nucleotide binding site [chemical binding]; other site 1131462007209 Mg binding site [ion binding]; other site 1131462007210 putative protofilament interaction site [polypeptide binding]; other site 1131462007211 RodZ interaction site [polypeptide binding]; other site 1131462007212 hypothetical protein; Reviewed; Region: PRK00024 1131462007213 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1131462007214 MPN+ (JAMM) motif; other site 1131462007215 Zinc-binding site [ion binding]; other site 1131462007216 Maf-like protein; Region: Maf; pfam02545 1131462007217 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 1131462007218 active site 1131462007219 dimer interface [polypeptide binding]; other site 1131462007220 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 1131462007221 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 1131462007222 active site 1131462007223 catalytic residues [active] 1131462007224 metal binding site [ion binding]; metal-binding site 1131462007225 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1131462007226 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1131462007227 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1131462007228 CoA binding domain; Region: CoA_binding; smart00881 1131462007229 Sporulation related domain; Region: SPOR; pfam05036 1131462007230 Response regulator receiver domain; Region: Response_reg; pfam00072 1131462007231 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 1131462007232 active site 1131462007233 phosphorylation site [posttranslational modification] 1131462007234 intermolecular recognition site; other site 1131462007235 dimerization interface [polypeptide binding]; other site 1131462007236 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462007237 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462007238 metal binding site [ion binding]; metal-binding site 1131462007239 active site 1131462007240 I-site; other site 1131462007241 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1131462007242 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1131462007243 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1131462007244 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1131462007245 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1131462007246 HIGH motif; other site 1131462007247 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1131462007248 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1131462007249 active site 1131462007250 KMSKS motif; other site 1131462007251 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1131462007252 tRNA binding surface [nucleotide binding]; other site 1131462007253 anticodon binding site; other site 1131462007254 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1131462007255 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1131462007256 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1131462007257 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1131462007258 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 1131462007259 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1131462007260 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 1131462007261 active site 1131462007262 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1131462007263 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1131462007264 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1131462007265 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1131462007266 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1131462007267 G1 box; other site 1131462007268 GTP/Mg2+ binding site [chemical binding]; other site 1131462007269 Switch I region; other site 1131462007270 G2 box; other site 1131462007271 G3 box; other site 1131462007272 Switch II region; other site 1131462007273 G4 box; other site 1131462007274 G5 box; other site 1131462007275 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1131462007276 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1131462007277 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 1131462007278 Walker A motif; other site 1131462007279 ATP binding site [chemical binding]; other site 1131462007280 Walker B motif; other site 1131462007281 arginine finger; other site 1131462007282 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1131462007283 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 1131462007284 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 1131462007285 Walker A motif; other site 1131462007286 ATP binding site [chemical binding]; other site 1131462007287 Walker B motif; other site 1131462007288 arginine finger; other site 1131462007289 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1131462007290 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1131462007291 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 1131462007292 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 1131462007293 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1131462007294 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 1131462007295 cobalamin binding residues [chemical binding]; other site 1131462007296 putative BtuC binding residues; other site 1131462007297 dimer interface [polypeptide binding]; other site 1131462007298 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1131462007299 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 1131462007300 ABC-ATPase subunit interface; other site 1131462007301 dimer interface [polypeptide binding]; other site 1131462007302 putative PBP binding regions; other site 1131462007303 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1131462007304 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1131462007305 Walker A/P-loop; other site 1131462007306 ATP binding site [chemical binding]; other site 1131462007307 Q-loop/lid; other site 1131462007308 ABC transporter signature motif; other site 1131462007309 Walker B; other site 1131462007310 D-loop; other site 1131462007311 H-loop/switch region; other site 1131462007312 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 1131462007313 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1131462007314 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1131462007315 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 1131462007316 Walker A motif; other site 1131462007317 ATP binding site [chemical binding]; other site 1131462007318 Walker B motif; other site 1131462007319 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1131462007320 trigger factor; Provisional; Region: tig; PRK01490 1131462007321 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1131462007322 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1131462007323 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 1131462007324 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 1131462007325 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 1131462007326 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1131462007327 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1131462007328 Bacterial transcriptional regulator; Region: IclR; pfam01614 1131462007329 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1131462007330 Interdomain contacts; other site 1131462007331 Cytokine receptor motif; other site 1131462007332 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1131462007333 Interdomain contacts; other site 1131462007334 Cytokine receptor motif; other site 1131462007335 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007336 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007337 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007338 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1131462007339 Interdomain contacts; other site 1131462007340 Cytokine receptor motif; other site 1131462007341 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1131462007342 Interdomain contacts; other site 1131462007343 Cytokine receptor motif; other site 1131462007344 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 1131462007345 active site 1131462007346 dimerization interface [polypeptide binding]; other site 1131462007347 ribonuclease PH; Reviewed; Region: rph; PRK00173 1131462007348 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1131462007349 hexamer interface [polypeptide binding]; other site 1131462007350 active site 1131462007351 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 1131462007352 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1131462007353 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 1131462007354 S-adenosylmethionine binding site [chemical binding]; other site 1131462007355 Fumarase C-terminus; Region: Fumerase_C; cl00795 1131462007356 fumarate hydratase; Provisional; Region: PRK06246 1131462007357 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1131462007358 MarR family; Region: MarR; pfam01047 1131462007359 Sporulation and spore germination; Region: Germane; pfam10646 1131462007360 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1131462007361 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 1131462007362 active site 1131462007363 phosphorylation site [posttranslational modification] 1131462007364 intermolecular recognition site; other site 1131462007365 dimerization interface [polypeptide binding]; other site 1131462007366 LytTr DNA-binding domain; Region: LytTR; smart00850 1131462007367 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 1131462007368 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1131462007369 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1131462007370 active site 1131462007371 catalytic triad [active] 1131462007372 oxyanion hole [active] 1131462007373 Protein of unknown function (DUF964); Region: DUF964; pfam06133 1131462007374 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1131462007375 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1131462007376 C-terminal peptidase (prc); Region: prc; TIGR00225 1131462007377 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 1131462007378 protein binding site [polypeptide binding]; other site 1131462007379 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1131462007380 Catalytic dyad [active] 1131462007381 Bacterial Ig-like domain; Region: Big_5; pfam13205 1131462007382 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1131462007383 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1131462007384 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1131462007385 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1131462007386 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1131462007387 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1131462007388 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1131462007389 HlyD family secretion protein; Region: HlyD_3; pfam13437 1131462007390 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 1131462007391 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 1131462007392 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 1131462007393 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1131462007394 Interdomain contacts; other site 1131462007395 Cytokine receptor motif; other site 1131462007396 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007397 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007398 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007399 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1131462007400 Interdomain contacts; other site 1131462007401 Cytokine receptor motif; other site 1131462007402 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1131462007403 Interdomain contacts; other site 1131462007404 Cytokine receptor motif; other site 1131462007405 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1131462007406 Interdomain contacts; other site 1131462007407 Cytokine receptor motif; other site 1131462007408 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 1131462007409 putative active site [active] 1131462007410 putative catalytic triad [active] 1131462007411 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 1131462007412 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1131462007413 Interdomain contacts; other site 1131462007414 Cytokine receptor motif; other site 1131462007415 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 1131462007416 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1131462007417 Interdomain contacts; other site 1131462007418 Cytokine receptor motif; other site 1131462007419 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1131462007420 Interdomain contacts; other site 1131462007421 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1131462007422 FtsX-like permease family; Region: FtsX; pfam02687 1131462007423 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1131462007424 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1131462007425 Walker A/P-loop; other site 1131462007426 ATP binding site [chemical binding]; other site 1131462007427 Q-loop/lid; other site 1131462007428 ABC transporter signature motif; other site 1131462007429 Walker B; other site 1131462007430 D-loop; other site 1131462007431 H-loop/switch region; other site 1131462007432 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1131462007433 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1131462007434 HlyD family secretion protein; Region: HlyD_3; pfam13437 1131462007435 Outer membrane efflux protein; Region: OEP; pfam02321 1131462007436 Right handed beta helix region; Region: Beta_helix; pfam13229 1131462007437 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007438 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007439 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 1131462007440 active site 1131462007441 catalytic triad [active] 1131462007442 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007443 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 1131462007444 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007445 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007446 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007447 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007448 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007449 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 1131462007450 active site 1131462007451 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 1131462007452 Glyco_18 domain; Region: Glyco_18; smart00636 1131462007453 active site 1131462007454 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1131462007455 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1131462007456 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 1131462007457 inhibitor-cofactor binding pocket; inhibition site 1131462007458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462007459 catalytic residue [active] 1131462007460 putative glycosyl transferase; Provisional; Region: PRK10307 1131462007461 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1131462007462 O-Antigen ligase; Region: Wzy_C; cl04850 1131462007463 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1131462007464 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1131462007465 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1131462007466 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 1131462007467 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1131462007468 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 1131462007469 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 1131462007470 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1131462007471 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 1131462007472 inhibitor-cofactor binding pocket; inhibition site 1131462007473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462007474 catalytic residue [active] 1131462007475 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1131462007476 putative trimer interface [polypeptide binding]; other site 1131462007477 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1131462007478 putative CoA binding site [chemical binding]; other site 1131462007479 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 1131462007480 putative trimer interface [polypeptide binding]; other site 1131462007481 putative active site [active] 1131462007482 putative substrate binding site [chemical binding]; other site 1131462007483 putative CoA binding site [chemical binding]; other site 1131462007484 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1131462007485 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1131462007486 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1131462007487 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1131462007488 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1131462007489 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1131462007490 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1131462007491 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1131462007492 CoA binding domain; Region: CoA_binding; cl17356 1131462007493 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1131462007494 NAD(P) binding site [chemical binding]; other site 1131462007495 homodimer interface [polypeptide binding]; other site 1131462007496 substrate binding site [chemical binding]; other site 1131462007497 active site 1131462007498 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 1131462007499 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1131462007500 catalytic residue [active] 1131462007501 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007502 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007503 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007504 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 1131462007505 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1131462007506 catalytic residue [active] 1131462007507 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007508 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007509 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007510 Predicted integral membrane protein [Function unknown]; Region: COG5658 1131462007511 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 1131462007512 SdpI/YhfL protein family; Region: SdpI; pfam13630 1131462007513 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 1131462007514 dimerization interface [polypeptide binding]; other site 1131462007515 putative DNA binding site [nucleotide binding]; other site 1131462007516 putative Zn2+ binding site [ion binding]; other site 1131462007517 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1131462007518 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1131462007519 active site 1131462007520 tetramer interface; other site 1131462007521 Clp protease; Region: CLP_protease; pfam00574 1131462007522 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1131462007523 oligomer interface [polypeptide binding]; other site 1131462007524 active site residues [active] 1131462007525 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1131462007526 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 1131462007527 putative dimer interface [polypeptide binding]; other site 1131462007528 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 1131462007529 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 1131462007530 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 1131462007531 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 1131462007532 dimer interface [polypeptide binding]; other site 1131462007533 Citrate synthase; Region: Citrate_synt; pfam00285 1131462007534 active site 1131462007535 citrylCoA binding site [chemical binding]; other site 1131462007536 oxalacetate/citrate binding site [chemical binding]; other site 1131462007537 coenzyme A binding site [chemical binding]; other site 1131462007538 catalytic triad [active] 1131462007539 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1131462007540 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1131462007541 putative active site [active] 1131462007542 putative metal binding site [ion binding]; other site 1131462007543 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1131462007544 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1131462007545 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1131462007546 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1131462007547 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1131462007548 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 1131462007549 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1131462007550 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1131462007551 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1131462007552 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1131462007553 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1131462007554 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 1131462007555 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1131462007556 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 1131462007557 carboxyltransferase (CT) interaction site; other site 1131462007558 biotinylation site [posttranslational modification]; other site 1131462007559 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1131462007560 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 1131462007561 dimer interface [polypeptide binding]; other site 1131462007562 active site 1131462007563 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1131462007564 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1131462007565 NAD(P) binding site [chemical binding]; other site 1131462007566 homotetramer interface [polypeptide binding]; other site 1131462007567 homodimer interface [polypeptide binding]; other site 1131462007568 active site 1131462007569 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1131462007570 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1131462007571 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1131462007572 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1131462007573 FMN binding site [chemical binding]; other site 1131462007574 substrate binding site [chemical binding]; other site 1131462007575 putative catalytic residue [active] 1131462007576 acyl carrier protein; Provisional; Region: acpP; PRK00982 1131462007577 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1131462007578 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 1131462007579 dimer interface [polypeptide binding]; other site 1131462007580 active site 1131462007581 CoA binding pocket [chemical binding]; other site 1131462007582 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1131462007583 MarR family; Region: MarR_2; pfam12802 1131462007584 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462007585 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1131462007586 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462007587 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 1131462007588 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1131462007589 CoenzymeA binding site [chemical binding]; other site 1131462007590 subunit interaction site [polypeptide binding]; other site 1131462007591 PHB binding site; other site 1131462007592 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1131462007593 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1131462007594 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1131462007595 putative active site [active] 1131462007596 heme pocket [chemical binding]; other site 1131462007597 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 1131462007598 dimer interface [polypeptide binding]; other site 1131462007599 phosphorylation site [posttranslational modification] 1131462007600 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 1131462007601 ATP binding site [chemical binding]; other site 1131462007602 Mg2+ binding site [ion binding]; other site 1131462007603 G-X-G motif; other site 1131462007604 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1131462007605 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 1131462007606 active site 1131462007607 phosphorylation site [posttranslational modification] 1131462007608 intermolecular recognition site; other site 1131462007609 dimerization interface [polypeptide binding]; other site 1131462007610 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462007611 Zn2+ binding site [ion binding]; other site 1131462007612 Mg2+ binding site [ion binding]; other site 1131462007613 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1131462007614 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 1131462007615 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 1131462007616 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1131462007617 active site 1131462007618 dimer interface [polypeptide binding]; other site 1131462007619 effector binding site; other site 1131462007620 TSCPD domain; Region: TSCPD; pfam12637 1131462007621 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 1131462007622 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1131462007623 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1131462007624 Predicted membrane protein [Function unknown]; Region: COG1511 1131462007625 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1131462007626 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1131462007627 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1131462007628 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1131462007629 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1131462007630 dimer interface [polypeptide binding]; other site 1131462007631 PYR/PP interface [polypeptide binding]; other site 1131462007632 TPP binding site [chemical binding]; other site 1131462007633 substrate binding site [chemical binding]; other site 1131462007634 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1131462007635 Domain of unknown function; Region: EKR; pfam10371 1131462007636 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 1131462007637 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1131462007638 TPP-binding site [chemical binding]; other site 1131462007639 dimer interface [polypeptide binding]; other site 1131462007640 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1131462007641 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 1131462007642 dimerization interface [polypeptide binding]; other site 1131462007643 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 1131462007644 dimer interface [polypeptide binding]; other site 1131462007645 phosphorylation site [posttranslational modification] 1131462007646 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 1131462007647 ATP binding site [chemical binding]; other site 1131462007648 Mg2+ binding site [ion binding]; other site 1131462007649 G-X-G motif; other site 1131462007650 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1131462007651 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 1131462007652 active site 1131462007653 phosphorylation site [posttranslational modification] 1131462007654 intermolecular recognition site; other site 1131462007655 dimerization interface [polypeptide binding]; other site 1131462007656 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 1131462007657 DNA binding site [nucleotide binding] 1131462007658 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 1131462007659 Rubredoxin; Region: Rubredoxin; pfam00301 1131462007660 iron binding site [ion binding]; other site 1131462007661 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1131462007662 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1131462007663 DNA-binding site [nucleotide binding]; DNA binding site 1131462007664 FCD domain; Region: FCD; pfam07729 1131462007665 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 1131462007666 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1131462007667 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1131462007668 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1131462007669 germination protein YpeB; Region: spore_YpeB; TIGR02889 1131462007670 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 1131462007671 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 1131462007672 ligand binding site [chemical binding]; other site 1131462007673 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1131462007674 non-specific DNA interactions [nucleotide binding]; other site 1131462007675 DNA binding site [nucleotide binding] 1131462007676 sequence specific DNA binding site [nucleotide binding]; other site 1131462007677 putative cAMP binding site [chemical binding]; other site 1131462007678 Integral membrane protein TerC family; Region: TerC; cl10468 1131462007679 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1131462007680 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 1131462007681 putative ligand binding site [chemical binding]; other site 1131462007682 helicase 45; Provisional; Region: PTZ00424 1131462007683 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 1131462007684 ATP binding site [chemical binding]; other site 1131462007685 Mg++ binding site [ion binding]; other site 1131462007686 motif III; other site 1131462007687 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 1131462007688 nucleotide binding region [chemical binding]; other site 1131462007689 ATP-binding site [chemical binding]; other site 1131462007690 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462007691 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1131462007692 Walker A/P-loop; other site 1131462007693 ATP binding site [chemical binding]; other site 1131462007694 Q-loop/lid; other site 1131462007695 ABC transporter signature motif; other site 1131462007696 Walker B; other site 1131462007697 D-loop; other site 1131462007698 H-loop/switch region; other site 1131462007699 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1131462007700 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 1131462007701 dimer interface [polypeptide binding]; other site 1131462007702 conserved gate region; other site 1131462007703 putative PBP binding loops; other site 1131462007704 ABC-ATPase subunit interface; other site 1131462007705 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1131462007706 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1131462007707 Helix-turn-helix domain; Region: HTH_17; pfam12728 1131462007708 PBP superfamily domain; Region: PBP_like; pfam12727 1131462007709 EDD domain protein, DegV family; Region: DegV; TIGR00762 1131462007710 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1131462007711 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1131462007712 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 1131462007713 dimerization interface [polypeptide binding]; other site 1131462007714 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 1131462007715 dimer interface [polypeptide binding]; other site 1131462007716 phosphorylation site [posttranslational modification] 1131462007717 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 1131462007718 ATP binding site [chemical binding]; other site 1131462007719 Mg2+ binding site [ion binding]; other site 1131462007720 G-X-G motif; other site 1131462007721 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1131462007722 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 1131462007723 active site 1131462007724 phosphorylation site [posttranslational modification] 1131462007725 intermolecular recognition site; other site 1131462007726 dimerization interface [polypeptide binding]; other site 1131462007727 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 1131462007728 DNA binding site [nucleotide binding] 1131462007729 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462007730 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462007731 metal binding site [ion binding]; metal-binding site 1131462007732 active site 1131462007733 I-site; other site 1131462007734 aspartate aminotransferase; Provisional; Region: PRK06836 1131462007735 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 1131462007736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462007737 homodimer interface [polypeptide binding]; other site 1131462007738 catalytic residue [active] 1131462007739 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1131462007740 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 1131462007741 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1131462007742 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1131462007743 Walker A/P-loop; other site 1131462007744 ATP binding site [chemical binding]; other site 1131462007745 Q-loop/lid; other site 1131462007746 ABC transporter signature motif; other site 1131462007747 Walker B; other site 1131462007748 D-loop; other site 1131462007749 H-loop/switch region; other site 1131462007750 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1131462007751 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 1131462007752 cobalt transport protein CbiM; Validated; Region: PRK06265 1131462007753 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1131462007754 PDGLE domain; Region: PDGLE; pfam13190 1131462007755 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1131462007756 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1131462007757 Ligand binding site; other site 1131462007758 Putative Catalytic site; other site 1131462007759 DXD motif; other site 1131462007760 GtrA-like protein; Region: GtrA; pfam04138 1131462007761 Predicted membrane protein [Function unknown]; Region: COG2246 1131462007762 Response regulator receiver domain; Region: Response_reg; pfam00072 1131462007763 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 1131462007764 active site 1131462007765 phosphorylation site [posttranslational modification] 1131462007766 intermolecular recognition site; other site 1131462007767 dimerization interface [polypeptide binding]; other site 1131462007768 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1131462007769 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462007770 Zn2+ binding site [ion binding]; other site 1131462007771 Mg2+ binding site [ion binding]; other site 1131462007772 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1131462007773 HAMP domain; Region: HAMP; pfam00672 1131462007774 dimerization interface [polypeptide binding]; other site 1131462007775 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 1131462007776 dimer interface [polypeptide binding]; other site 1131462007777 phosphorylation site [posttranslational modification] 1131462007778 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 1131462007779 ATP binding site [chemical binding]; other site 1131462007780 Mg2+ binding site [ion binding]; other site 1131462007781 G-X-G motif; other site 1131462007782 Condensation domain; Region: Condensation; pfam00668 1131462007783 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1131462007784 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1131462007785 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1131462007786 acyl-activating enzyme (AAE) consensus motif; other site 1131462007787 AMP binding site [chemical binding]; other site 1131462007788 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1131462007789 thioester reductase domain; Region: Thioester-redct; TIGR01746 1131462007790 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 1131462007791 putative NAD(P) binding site [chemical binding]; other site 1131462007792 active site 1131462007793 putative substrate binding site [chemical binding]; other site 1131462007794 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1131462007795 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 1131462007796 dimerization interface [polypeptide binding]; other site 1131462007797 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 1131462007798 dimer interface [polypeptide binding]; other site 1131462007799 phosphorylation site [posttranslational modification] 1131462007800 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 1131462007801 ATP binding site [chemical binding]; other site 1131462007802 Mg2+ binding site [ion binding]; other site 1131462007803 G-X-G motif; other site 1131462007804 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1131462007805 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 1131462007806 active site 1131462007807 phosphorylation site [posttranslational modification] 1131462007808 intermolecular recognition site; other site 1131462007809 dimerization interface [polypeptide binding]; other site 1131462007810 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 1131462007811 DNA binding site [nucleotide binding] 1131462007812 Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]; Region: Tsf; COG0264 1131462007813 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1131462007814 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 1131462007815 putative DNA binding site [nucleotide binding]; other site 1131462007816 putative Zn2+ binding site [ion binding]; other site 1131462007817 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1131462007818 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1131462007819 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462007820 Walker A/P-loop; other site 1131462007821 ATP binding site [chemical binding]; other site 1131462007822 Q-loop/lid; other site 1131462007823 ABC transporter signature motif; other site 1131462007824 Walker B; other site 1131462007825 D-loop; other site 1131462007826 H-loop/switch region; other site 1131462007827 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1131462007828 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1131462007829 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1131462007830 Walker A/P-loop; other site 1131462007831 ATP binding site [chemical binding]; other site 1131462007832 Q-loop/lid; other site 1131462007833 ABC transporter signature motif; other site 1131462007834 Walker B; other site 1131462007835 D-loop; other site 1131462007836 H-loop/switch region; other site 1131462007837 Response regulator receiver domain; Region: Response_reg; pfam00072 1131462007838 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 1131462007839 active site 1131462007840 phosphorylation site [posttranslational modification] 1131462007841 intermolecular recognition site; other site 1131462007842 dimerization interface [polypeptide binding]; other site 1131462007843 HDOD domain; Region: HDOD; pfam08668 1131462007844 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1131462007845 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 1131462007846 ATP binding site [chemical binding]; other site 1131462007847 Mg2+ binding site [ion binding]; other site 1131462007848 G-X-G motif; other site 1131462007849 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1131462007850 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 1131462007851 active site 1131462007852 phosphorylation site [posttranslational modification] 1131462007853 intermolecular recognition site; other site 1131462007854 dimerization interface [polypeptide binding]; other site 1131462007855 LytTr DNA-binding domain; Region: LytTR; pfam04397 1131462007856 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1131462007857 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1131462007858 metal binding site [ion binding]; metal-binding site 1131462007859 active site 1131462007860 I-site; other site 1131462007861 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1131462007862 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 1131462007863 oligomer interface [polypeptide binding]; other site 1131462007864 aspartate ring; other site 1131462007865 basic sphincter; other site 1131462007866 hydrophobic gate; other site 1131462007867 periplasmic entrance; other site 1131462007868 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 1131462007869 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1131462007870 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1131462007871 active site 1131462007872 substrate binding site [chemical binding]; other site 1131462007873 metal binding site [ion binding]; metal-binding site 1131462007874 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 1131462007875 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 1131462007876 active site 1131462007877 dimer interface [polypeptide binding]; other site 1131462007878 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 1131462007879 dimer interface [polypeptide binding]; other site 1131462007880 active site 1131462007881 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 1131462007882 Ligand Binding Site [chemical binding]; other site 1131462007883 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 1131462007884 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 1131462007885 FeS/SAM binding site; other site 1131462007886 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1131462007887 active site 1131462007888 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1131462007889 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 1131462007890 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 1131462007891 DRTGG domain; Region: DRTGG; pfam07085 1131462007892 CBS domain; Region: CBS; pfam00571 1131462007893 DHH family; Region: DHH; pfam01368 1131462007894 DHHA2 domain; Region: DHHA2; pfam02833 1131462007895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1131462007896 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1131462007897 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 1131462007898 catalytic loop [active] 1131462007899 iron binding site [ion binding]; other site 1131462007900 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1131462007901 PhoU domain; Region: PhoU; pfam01895 1131462007902 PhoU domain; Region: PhoU; pfam01895 1131462007903 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1131462007904 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1131462007905 Walker A/P-loop; other site 1131462007906 ATP binding site [chemical binding]; other site 1131462007907 Q-loop/lid; other site 1131462007908 ABC transporter signature motif; other site 1131462007909 Walker B; other site 1131462007910 D-loop; other site 1131462007911 H-loop/switch region; other site 1131462007912 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1131462007913 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 1131462007914 dimer interface [polypeptide binding]; other site 1131462007915 conserved gate region; other site 1131462007916 putative PBP binding loops; other site 1131462007917 ABC-ATPase subunit interface; other site 1131462007918 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1131462007919 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 1131462007920 dimer interface [polypeptide binding]; other site 1131462007921 conserved gate region; other site 1131462007922 putative PBP binding loops; other site 1131462007923 ABC-ATPase subunit interface; other site 1131462007924 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1131462007925 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 1131462007926 dimerization interface [polypeptide binding]; other site 1131462007927 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1131462007928 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 1131462007929 dimer interface [polypeptide binding]; other site 1131462007930 phosphorylation site [posttranslational modification] 1131462007931 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 1131462007932 ATP binding site [chemical binding]; other site 1131462007933 Mg2+ binding site [ion binding]; other site 1131462007934 G-X-G motif; other site 1131462007935 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1131462007936 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 1131462007937 active site 1131462007938 phosphorylation site [posttranslational modification] 1131462007939 intermolecular recognition site; other site 1131462007940 dimerization interface [polypeptide binding]; other site 1131462007941 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 1131462007942 DNA binding site [nucleotide binding] 1131462007943 PBP superfamily domain; Region: PBP_like_2; cl17296 1131462007944 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1131462007945 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1131462007946 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1131462007947 ATP binding site [chemical binding]; other site 1131462007948 DEAD_2; Region: DEAD_2; pfam06733 1131462007949 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1131462007950 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1131462007951 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 1131462007952 dimer interface [polypeptide binding]; other site 1131462007953 active site 1131462007954 citrylCoA binding site [chemical binding]; other site 1131462007955 Citrate synthase; Region: Citrate_synt; pfam00285 1131462007956 oxalacetate/citrate binding site [chemical binding]; other site 1131462007957 coenzyme A binding site [chemical binding]; other site 1131462007958 catalytic triad [active] 1131462007959 Response regulator receiver domain; Region: Response_reg; pfam00072 1131462007960 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 1131462007961 active site 1131462007962 phosphorylation site [posttranslational modification] 1131462007963 intermolecular recognition site; other site 1131462007964 dimerization interface [polypeptide binding]; other site 1131462007965 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 1131462007966 ATP binding site [chemical binding]; other site 1131462007967 Mg2+ binding site [ion binding]; other site 1131462007968 G-X-G motif; other site 1131462007969 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1131462007970 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 1131462007971 intersubunit interface [polypeptide binding]; other site 1131462007972 active site 1131462007973 zinc binding site [ion binding]; other site 1131462007974 Na+ binding site [ion binding]; other site 1131462007975 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 1131462007976 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 1131462007977 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1131462007978 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 1131462007979 dimerization interface [polypeptide binding]; other site 1131462007980 ATP binding site [chemical binding]; other site 1131462007981 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 1131462007982 dimerization interface [polypeptide binding]; other site 1131462007983 ATP binding site [chemical binding]; other site 1131462007984 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1131462007985 putative active site [active] 1131462007986 catalytic triad [active] 1131462007987 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1131462007988 Zn2+ binding site [ion binding]; other site 1131462007989 Mg2+ binding site [ion binding]; other site 1131462007990 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 1131462007991 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 1131462007992 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1131462007993 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1131462007994 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007995 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007996 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1131462007997 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1131462007998 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 1131462007999 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 1131462008000 SmpB-tmRNA interface; other site 1131462008001 Esterase/lipase [General function prediction only]; Region: COG1647 1131462008002 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1131462008003 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 1131462008004 Preprotein translocase SecG subunit; Region: SecG; cl09123 1131462008005 enolase; Provisional; Region: eno; PRK00077 1131462008006 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 1131462008007 dimer interface [polypeptide binding]; other site 1131462008008 metal binding site [ion binding]; metal-binding site 1131462008009 substrate binding pocket [chemical binding]; other site 1131462008010 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1131462008011 phosphoglyceromutase; Provisional; Region: PRK05434 1131462008012 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 1131462008013 triosephosphate isomerase; Provisional; Region: PRK14565 1131462008014 substrate binding site [chemical binding]; other site 1131462008015 dimer interface [polypeptide binding]; other site 1131462008016 catalytic triad [active] 1131462008017 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 1131462008018 Phosphoglycerate kinase; Region: PGK; pfam00162 1131462008019 substrate binding site [chemical binding]; other site 1131462008020 hinge regions; other site 1131462008021 ADP binding site [chemical binding]; other site 1131462008022 catalytic site [active] 1131462008023 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1131462008024 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1131462008025 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1131462008026 TrkA-N domain; Region: TrkA_N; pfam02254 1131462008027 TrkA-C domain; Region: TrkA_C; pfam02080 1131462008028 TrkA-N domain; Region: TrkA_N; pfam02254 1131462008029 TrkA-C domain; Region: TrkA_C; pfam02080 1131462008030 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1131462008031 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1131462008032 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1131462008033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1131462008034 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1131462008035 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1131462008036 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1131462008037 phosphate binding site [ion binding]; other site 1131462008038 putative substrate binding pocket [chemical binding]; other site 1131462008039 dimer interface [polypeptide binding]; other site 1131462008040 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1131462008041 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1131462008042 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1131462008043 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1131462008044 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 1131462008045 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 1131462008046 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1131462008047 active site 1131462008048 motif I; other site 1131462008049 motif II; other site 1131462008050 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 1131462008051 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1131462008052 Histidine kinase; Region: HisKA_3; pfam07730 1131462008053 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1131462008054 ATP binding site [chemical binding]; other site 1131462008055 Mg2+ binding site [ion binding]; other site 1131462008056 G-X-G motif; other site 1131462008057 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1131462008058 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 1131462008059 active site 1131462008060 phosphorylation site [posttranslational modification] 1131462008061 intermolecular recognition site; other site 1131462008062 dimerization interface [polypeptide binding]; other site 1131462008063 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 1131462008064 DNA binding residues [nucleotide binding] 1131462008065 dimerization interface [polypeptide binding]; other site 1131462008066 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1131462008067 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462008068 Walker A/P-loop; other site 1131462008069 ATP binding site [chemical binding]; other site 1131462008070 Q-loop/lid; other site 1131462008071 ABC transporter signature motif; other site 1131462008072 Walker B; other site 1131462008073 D-loop; other site 1131462008074 H-loop/switch region; other site 1131462008075 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1131462008076 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1131462008077 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1131462008078 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1131462008079 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1131462008080 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 1131462008081 oligomerization interface [polypeptide binding]; other site 1131462008082 active site 1131462008083 metal binding site [ion binding]; metal-binding site 1131462008084 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1131462008085 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1131462008086 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462008087 Q-loop/lid; other site 1131462008088 ABC transporter signature motif; other site 1131462008089 Walker B; other site 1131462008090 D-loop; other site 1131462008091 H-loop/switch region; other site 1131462008092 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1131462008093 excinuclease ABC subunit B; Provisional; Region: PRK05298 1131462008094 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 1131462008095 ATP binding site [chemical binding]; other site 1131462008096 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 1131462008097 nucleotide binding region [chemical binding]; other site 1131462008098 ATP-binding site [chemical binding]; other site 1131462008099 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1131462008100 UvrB/uvrC motif; Region: UVR; pfam02151 1131462008101 hypothetical protein; Provisional; Region: PRK06851 1131462008102 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1131462008103 C-terminal peptidase (prc); Region: prc; TIGR00225 1131462008104 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 1131462008105 protein binding site [polypeptide binding]; other site 1131462008106 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1131462008107 Catalytic dyad [active] 1131462008108 AmiB activator; Provisional; Region: PRK11637 1131462008109 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 1131462008110 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1131462008111 Peptidase family M23; Region: Peptidase_M23; pfam01551 1131462008112 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1131462008113 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1131462008114 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1131462008115 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1131462008116 Walker A/P-loop; other site 1131462008117 ATP binding site [chemical binding]; other site 1131462008118 Q-loop/lid; other site 1131462008119 ABC transporter signature motif; other site 1131462008120 Walker B; other site 1131462008121 D-loop; other site 1131462008122 H-loop/switch region; other site 1131462008123 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1131462008124 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 1131462008125 PYR/PP interface [polypeptide binding]; other site 1131462008126 dimer interface [polypeptide binding]; other site 1131462008127 TPP binding site [chemical binding]; other site 1131462008128 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1131462008129 transketolase; Reviewed; Region: PRK05899 1131462008130 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 1131462008131 TPP-binding site [chemical binding]; other site 1131462008132 dimer interface [polypeptide binding]; other site 1131462008133 peptide chain release factor 2; Provisional; Region: PRK05589 1131462008134 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1131462008135 RF-1 domain; Region: RF-1; pfam00472 1131462008136 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1131462008137 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 1131462008138 ATP binding site [chemical binding]; other site 1131462008139 putative Mg++ binding site [ion binding]; other site 1131462008140 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1131462008141 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1131462008142 nucleotide binding region [chemical binding]; other site 1131462008143 ATP-binding site [chemical binding]; other site 1131462008144 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 1131462008145 30S subunit binding site; other site 1131462008146 RecR protein; Region: RecR; pfam02132 1131462008147 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1131462008148 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1131462008149 active site 1131462008150 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 1131462008151 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 1131462008152 ATP binding site [chemical binding]; other site 1131462008153 putative Mg++ binding site [ion binding]; other site 1131462008154 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 1131462008155 nucleotide binding region [chemical binding]; other site 1131462008156 ATP-binding site [chemical binding]; other site 1131462008157 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1131462008158 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 1131462008159 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1131462008160 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1131462008161 rod shape-determining protein Mbl; Provisional; Region: PRK13928 1131462008162 MreB and similar proteins; Region: MreB_like; cd10225 1131462008163 nucleotide binding site [chemical binding]; other site 1131462008164 Mg binding site [ion binding]; other site 1131462008165 putative protofilament interaction site [polypeptide binding]; other site 1131462008166 RodZ interaction site [polypeptide binding]; other site 1131462008167 Stage III sporulation protein D; Region: SpoIIID; pfam12116 1131462008168 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 1131462008169 Stage II sporulation protein; Region: SpoIID; pfam08486 1131462008170 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 1131462008171 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1131462008172 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 1131462008173 hinge; other site 1131462008174 active site 1131462008175 Uncharacterized family 1; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_1; cd10158 1131462008176 putative homodimer interface [polypeptide binding]; other site 1131462008177 putative homotetramer interface [polypeptide binding]; other site 1131462008178 putative metal binding site [ion binding]; other site 1131462008179 putative homodimer-homodimer interface [polypeptide binding]; other site 1131462008180 putative allosteric switch controlling residues; other site 1131462008181 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1131462008182 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 1131462008183 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1131462008184 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1131462008185 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 1131462008186 active site 1131462008187 DNA binding site [nucleotide binding] 1131462008188 Int/Topo IB signature motif; other site 1131462008189 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1131462008190 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 1131462008191 active site 1131462008192 DNA binding site [nucleotide binding] 1131462008193 Int/Topo IB signature motif; other site 1131462008194 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1131462008195 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 1131462008196 Int/Topo IB signature motif; other site 1131462008197 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1131462008198 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1131462008199 putative active site [active] 1131462008200 putative NTP binding site [chemical binding]; other site 1131462008201 putative nucleic acid binding site [nucleotide binding]; other site 1131462008202 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1131462008203 gamma subunit interface [polypeptide binding]; other site 1131462008204 epsilon subunit interface [polypeptide binding]; other site 1131462008205 LBP interface [polypeptide binding]; other site 1131462008206 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1131462008207 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1131462008208 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 1131462008209 alpha subunit interaction interface [polypeptide binding]; other site 1131462008210 Walker A motif; other site 1131462008211 ATP binding site [chemical binding]; other site 1131462008212 Walker B motif; other site 1131462008213 inhibitor binding site; inhibition site 1131462008214 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1131462008215 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1131462008216 core domain interface [polypeptide binding]; other site 1131462008217 delta subunit interface [polypeptide binding]; other site 1131462008218 epsilon subunit interface [polypeptide binding]; other site 1131462008219 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1131462008220 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1131462008221 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 1131462008222 beta subunit interaction interface [polypeptide binding]; other site 1131462008223 Walker A motif; other site 1131462008224 ATP binding site [chemical binding]; other site 1131462008225 Walker B motif; other site 1131462008226 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1131462008227 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 1131462008228 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1131462008229 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1131462008230 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1131462008231 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1131462008232 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1131462008233 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1131462008234 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1131462008235 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1131462008236 active site 1131462008237 homodimer interface [polypeptide binding]; other site 1131462008238 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 1131462008239 catalytic motif [active] 1131462008240 Zn binding site [ion binding]; other site 1131462008241 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1131462008242 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 1131462008243 dimer interface [polypeptide binding]; other site 1131462008244 active site 1131462008245 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1131462008246 folate binding site [chemical binding]; other site 1131462008247 hypothetical protein; Provisional; Region: PRK13690 1131462008248 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1131462008249 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1131462008250 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1131462008251 active site 1131462008252 Predicted membrane protein [Function unknown]; Region: COG1971 1131462008253 Domain of unknown function DUF; Region: DUF204; pfam02659 1131462008254 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1131462008255 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1131462008256 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1131462008257 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 1131462008258 S-adenosylmethionine binding site [chemical binding]; other site 1131462008259 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1131462008260 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1131462008261 RF-1 domain; Region: RF-1; pfam00472 1131462008262 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 1131462008263 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1131462008264 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1131462008265 putative active site [active] 1131462008266 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1131462008267 active site 1131462008268 intersubunit interactions; other site 1131462008269 catalytic residue [active] 1131462008270 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 1131462008271 Response regulator receiver domain; Region: Response_reg; pfam00072 1131462008272 active site 1131462008273 phosphorylation site [posttranslational modification] 1131462008274 intermolecular recognition site; other site 1131462008275 dimerization interface [polypeptide binding]; other site 1131462008276 alanine racemase; Reviewed; Region: alr; PRK00053 1131462008277 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1131462008278 active site 1131462008279 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1131462008280 dimer interface [polypeptide binding]; other site 1131462008281 substrate binding site [chemical binding]; other site 1131462008282 catalytic residues [active] 1131462008283 FemAB family; Region: FemAB; pfam02388 1131462008284 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1131462008285 CTP synthetase; Validated; Region: pyrG; PRK05380 1131462008286 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 1131462008287 Catalytic site [active] 1131462008288 active site 1131462008289 UTP binding site [chemical binding]; other site 1131462008290 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1131462008291 active site 1131462008292 putative oxyanion hole; other site 1131462008293 catalytic triad [active] 1131462008294 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1131462008295 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1131462008296 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1131462008297 active site 1131462008298 HIGH motif; other site 1131462008299 KMSK motif region; other site 1131462008300 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1131462008301 tRNA binding surface [nucleotide binding]; other site 1131462008302 anticodon binding site; other site 1131462008303 germination protein YpeB; Region: spore_YpeB; TIGR02889 1131462008304 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 1131462008305 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1131462008306 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1131462008307 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1131462008308 FAD binding domain; Region: FAD_binding_4; pfam01565 1131462008309 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1131462008310 Cysteine-rich domain; Region: CCG; pfam02754 1131462008311 Cysteine-rich domain; Region: CCG; pfam02754 1131462008312 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1131462008313 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1131462008314 catalytic residue [active] 1131462008315 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1131462008316 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1131462008317 putative dimer interface [polypeptide binding]; other site 1131462008318 putative anticodon binding site; other site 1131462008319 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1131462008320 homodimer interface [polypeptide binding]; other site 1131462008321 motif 1; other site 1131462008322 motif 2; other site 1131462008323 active site 1131462008324 motif 3; other site 1131462008325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 1131462008326 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 1131462008327 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1131462008328 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1131462008329 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 1131462008330 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 1131462008331 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1131462008332 intermolecular recognition site; other site 1131462008333 active site 1131462008334 dimerization interface [polypeptide binding]; other site 1131462008335 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1131462008336 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1131462008337 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1131462008338 Predicted transcriptional regulators [Transcription]; Region: COG1725 1131462008339 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1131462008340 DNA-binding site [nucleotide binding]; DNA binding site 1131462008341 phosphodiesterase YaeI; Provisional; Region: PRK11340 1131462008342 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1131462008343 putative active site [active] 1131462008344 putative metal binding site [ion binding]; other site 1131462008345 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1131462008346 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1131462008347 HflX GTPase family; Region: HflX; cd01878 1131462008348 G1 box; other site 1131462008349 GTP/Mg2+ binding site [chemical binding]; other site 1131462008350 Switch I region; other site 1131462008351 G2 box; other site 1131462008352 G3 box; other site 1131462008353 Switch II region; other site 1131462008354 G4 box; other site 1131462008355 G5 box; other site 1131462008356 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1131462008357 UbiA prenyltransferase family; Region: UbiA; pfam01040 1131462008358 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1131462008359 hypothetical protein; Provisional; Region: PRK04194 1131462008360 preprotein translocase subunit SecA; Reviewed; Region: PRK12326 1131462008361 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 1131462008362 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1131462008363 nucleotide binding region [chemical binding]; other site 1131462008364 ATP-binding site [chemical binding]; other site 1131462008365 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1131462008366 dimer interface [polypeptide binding]; other site 1131462008367 putative CheW interface [polypeptide binding]; other site 1131462008368 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1131462008369 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1131462008370 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1131462008371 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 1131462008372 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1131462008373 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1131462008374 active site 1131462008375 putative homodimer interface [polypeptide binding]; other site 1131462008376 SAM binding site [chemical binding]; other site 1131462008377 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 1131462008378 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1131462008379 S-adenosylmethionine binding site [chemical binding]; other site 1131462008380 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 1131462008381 putative active site [active] 1131462008382 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1131462008383 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 1131462008384 inhibitor-cofactor binding pocket; inhibition site 1131462008385 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1131462008386 catalytic residue [active] 1131462008387 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 1131462008388 dimer interface [polypeptide binding]; other site 1131462008389 active site 1131462008390 Schiff base residues; other site 1131462008391 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1131462008392 active site 1131462008393 SAM binding site [chemical binding]; other site 1131462008394 homodimer interface [polypeptide binding]; other site 1131462008395 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1131462008396 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 1131462008397 active site 1131462008398 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1131462008399 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 1131462008400 domain interfaces; other site 1131462008401 active site 1131462008402 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1131462008403 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 1131462008404 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 1131462008405 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1131462008406 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1131462008407 homodimer interface [polypeptide binding]; other site 1131462008408 active site 1131462008409 SAM binding site [chemical binding]; other site 1131462008410 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1131462008411 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1131462008412 tRNA; other site 1131462008413 putative tRNA binding site [nucleotide binding]; other site 1131462008414 putative NADP binding site [chemical binding]; other site 1131462008415 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 1131462008416 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1131462008417 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1131462008418 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1131462008419 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1131462008420 active site 1131462008421 SAM binding site [chemical binding]; other site 1131462008422 homodimer interface [polypeptide binding]; other site 1131462008423 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1131462008424 active site 1131462008425 SAM binding site [chemical binding]; other site 1131462008426 homodimer interface [polypeptide binding]; other site 1131462008427 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1131462008428 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13636 1131462008429 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1131462008430 Walker A/P-loop; other site 1131462008431 ATP binding site [chemical binding]; other site 1131462008432 Q-loop/lid; other site 1131462008433 ABC transporter signature motif; other site 1131462008434 Walker B; other site 1131462008435 D-loop; other site 1131462008436 H-loop/switch region; other site 1131462008437 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 1131462008438 cobalt transport protein CbiN; Provisional; Region: PRK02898 1131462008439 cobalt transport protein CbiM; Validated; Region: PRK08319 1131462008440 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1131462008441 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1131462008442 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1131462008443 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1131462008444 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 1131462008445 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1131462008446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 1131462008447 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1131462008448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 1131462008449 Trypsin; Region: Trypsin; pfam00089 1131462008450 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 1131462008451 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1131462008452 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1131462008453 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1131462008454 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 1131462008455 TPR motif; other site 1131462008456 binding surface 1131462008457 TPR repeat; Region: TPR_11; pfam13414 1131462008458 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 1131462008459 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 1131462008460 FeS/SAM binding site; other site 1131462008461 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1131462008462 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1131462008463 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1131462008464 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 1131462008465 putative active site [active] 1131462008466 Zn binding site [ion binding]; other site 1131462008467 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 1131462008468 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1131462008469 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 1131462008470 GDP-binding site [chemical binding]; other site 1131462008471 ACT binding site; other site 1131462008472 IMP binding site; other site 1131462008473 replicative DNA helicase; Region: DnaB; TIGR00665 1131462008474 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1131462008475 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 1131462008476 Walker A motif; other site 1131462008477 ATP binding site [chemical binding]; other site 1131462008478 Walker B motif; other site 1131462008479 DNA binding loops [nucleotide binding] 1131462008480 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 1131462008481 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 1131462008482 Walker A motif; other site 1131462008483 ATP binding site [chemical binding]; other site 1131462008484 Walker B motif; other site 1131462008485 arginine finger; other site 1131462008486 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1131462008487 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1131462008488 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1131462008489 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1131462008490 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 1131462008491 MazG-like family; Region: MazG-like; pfam12643 1131462008492 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1131462008493 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1131462008494 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 1131462008495 dimer interface [polypeptide binding]; other site 1131462008496 ssDNA binding site [nucleotide binding]; other site 1131462008497 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1131462008498 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1131462008499 GTP-binding protein YchF; Reviewed; Region: PRK09601 1131462008500 YchF GTPase; Region: YchF; cd01900 1131462008501 G1 box; other site 1131462008502 GTP/Mg2+ binding site [chemical binding]; other site 1131462008503 Switch I region; other site 1131462008504 G2 box; other site 1131462008505 Switch II region; other site 1131462008506 G3 box; other site 1131462008507 G4 box; other site 1131462008508 G5 box; other site 1131462008509 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 1131462008510 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 1131462008511 Colicin V production protein; Region: Colicin_V; pfam02674 1131462008512 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 1131462008513 CPxP motif; other site 1131462008514 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 1131462008515 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1131462008516 G1 box; other site 1131462008517 putative GEF interaction site [polypeptide binding]; other site 1131462008518 GTP/Mg2+ binding site [chemical binding]; other site 1131462008519 Switch I region; other site 1131462008520 G2 box; other site 1131462008521 G3 box; other site 1131462008522 Switch II region; other site 1131462008523 G4 box; other site 1131462008524 G5 box; other site 1131462008525 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1131462008526 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1131462008527 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1131462008528 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 1131462008529 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1131462008530 ParB-like nuclease domain; Region: ParB; smart00470 1131462008531 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1131462008532 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 1131462008533 P-loop; other site 1131462008534 Magnesium ion binding site [ion binding]; other site 1131462008535 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 1131462008536 Magnesium ion binding site [ion binding]; other site 1131462008537 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1131462008538 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 1131462008539 S-adenosylmethionine binding site [chemical binding]; other site 1131462008540 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1131462008541 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1131462008542 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1131462008543 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1131462008544 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1131462008545 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1131462008546 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1131462008547 G1 box; other site 1131462008548 GTP/Mg2+ binding site [chemical binding]; other site 1131462008549 Switch I region; other site 1131462008550 G2 box; other site 1131462008551 Switch II region; other site 1131462008552 G3 box; other site 1131462008553 G4 box; other site 1131462008554 G5 box; other site 1131462008555 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1131462008556 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1131462008557 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 1131462008558 G-X-X-G motif; other site 1131462008559 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 1131462008560 RxxxH motif; other site 1131462008561 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1131462008562 Haemolytic domain; Region: Haemolytic; pfam01809 1131462008563 ribonuclease P; Reviewed; Region: rnpA; PRK00499