-- dump date 20120504_140822 -- class Genbank::misc_feature -- table misc_feature_note -- id note 477974000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 477974000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 477974000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 477974000004 Walker A motif; other site 477974000005 ATP binding site [chemical binding]; other site 477974000006 Walker B motif; other site 477974000007 arginine finger; other site 477974000008 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 477974000009 DnaA box-binding interface [nucleotide binding]; other site 477974000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 477974000011 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 477974000012 putative DNA binding surface [nucleotide binding]; other site 477974000013 dimer interface [polypeptide binding]; other site 477974000014 beta-clamp/clamp loader binding surface; other site 477974000015 beta-clamp/translesion DNA polymerase binding surface; other site 477974000016 recombination protein F; Reviewed; Region: recF; PRK00064 477974000017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974000018 Walker A/P-loop; other site 477974000019 ATP binding site [chemical binding]; other site 477974000020 Q-loop/lid; other site 477974000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974000022 ABC transporter signature motif; other site 477974000023 Walker B; other site 477974000024 D-loop; other site 477974000025 H-loop/switch region; other site 477974000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 477974000027 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 477974000028 ATP binding site [chemical binding]; other site 477974000029 Mg2+ binding site [ion binding]; other site 477974000030 G-X-G motif; other site 477974000031 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 477974000032 anchoring element; other site 477974000033 dimer interface [polypeptide binding]; other site 477974000034 ATP binding site [chemical binding]; other site 477974000035 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 477974000036 active site 477974000037 putative metal-binding site [ion binding]; other site 477974000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 477974000039 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 477974000040 active site 477974000041 DNA gyrase subunit A; Validated; Region: PRK05560 477974000042 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 in DNA...; Region: TOP4c; cd00187 477974000043 CAP-like domain; other site 477974000044 active site 477974000045 primary dimer interface [polypeptide binding]; other site 477974000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 477974000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 477974000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 477974000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 477974000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 477974000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 477974000052 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 477974000053 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 477974000054 active site 477974000055 multimer interface [polypeptide binding]; other site 477974000056 imidazole glycerol phosphate synthase subunit hisH; Provisional; Region: hisH; CHL00188 477974000057 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 477974000058 predicted active site [active] 477974000059 catalytic triad [active] 477974000060 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 477974000061 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 477974000062 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 477974000063 catalytic residue [active] 477974000064 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 477974000065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974000066 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 477974000067 putative L-serine binding site [chemical binding]; other site 477974000068 seryl-tRNA synthetase; Provisional; Region: PRK05431 477974000069 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 477974000070 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 bound...; Region: SerRS_core; cd00770 477974000071 dimer interface [polypeptide binding]; other site 477974000072 active site 477974000073 motif 1; other site 477974000074 motif 2; other site 477974000075 motif 3; other site 477974000076 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 477974000077 nucleoside/Zn binding site; other site 477974000078 dimer interface [polypeptide binding]; other site 477974000079 catalytic motif [active] 477974000080 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 477974000081 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 477974000082 trimer interface [polypeptide binding]; other site 477974000083 active site 477974000084 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 477974000085 catalytic site [active] 477974000086 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 477974000087 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 477974000088 active site 477974000089 homodimer interface [polypeptide binding]; other site 477974000090 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 477974000091 NeuB family; Region: NeuB; cl00496 477974000092 SAF domain; Region: SAF; cl00555 477974000093 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 477974000094 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 477974000095 NAD(P) binding site [chemical binding]; other site 477974000096 homodimer interface [polypeptide binding]; other site 477974000097 substrate binding site [chemical binding]; other site 477974000098 active site 477974000099 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 477974000100 ligand binding site; other site 477974000101 tetramer interface; other site 477974000102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974000103 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 477974000104 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 477974000105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974000106 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 477974000107 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 477974000108 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 477974000109 putative trimer interface [polypeptide binding]; other site 477974000110 putative CoA binding site [chemical binding]; other site 477974000111 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 477974000112 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 477974000113 inhibitor-cofactor binding pocket; inhibition site 477974000114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974000115 catalytic residue [active] 477974000116 BNR repeat-like domain; Region: BNR_2; pfam13088 477974000117 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 477974000118 BRE1 E3 ubiquitin ligase; Region: BRE1; pfam08647 477974000119 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974000120 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 477974000121 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974000122 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 477974000123 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 477974000124 recombination protein RecR; Reviewed; Region: recR; PRK00076 477974000125 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 477974000126 RecR protein; Region: RecR; pfam02132 477974000127 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 477974000128 putative active site [active] 477974000129 putative metal-binding site [ion binding]; other site 477974000130 tetramer interface [polypeptide binding]; other site 477974000131 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 477974000132 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 477974000133 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 477974000134 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 477974000135 catalytic residue [active] 477974000136 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 477974000137 thymidylate kinase; Validated; Region: tmk; PRK00698 477974000138 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 477974000139 TMP-binding site; other site 477974000140 ATP-binding site [chemical binding]; other site 477974000141 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 477974000142 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 477974000143 Walker A motif; other site 477974000144 ATP binding site [chemical binding]; other site 477974000145 Walker B motif; other site 477974000146 arginine finger; other site 477974000147 PSP1 C-terminal conserved region; Region: PSP1; cl00770 477974000148 Predicted methyltransferases [General function prediction only]; Region: COG0313 477974000149 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 477974000150 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 477974000151 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 477974000152 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 477974000153 HIGH motif; other site 477974000154 active site 477974000155 KMSKS motif; other site 477974000156 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 477974000157 tRNA binding surface [nucleotide binding]; other site 477974000158 anticodon binding site; other site 477974000159 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 477974000160 active site 477974000161 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 477974000162 homodimer interface [polypeptide binding]; other site 477974000163 Walker A motif; other site 477974000164 ATP binding site [chemical binding]; other site 477974000165 hydroxycobalamin binding site [chemical binding]; other site 477974000166 Walker B motif; other site 477974000167 Domain of unknown function (DUF348); Region: DUF348; pfam03990 477974000168 Domain of unknown function (DUF348); Region: DUF348; pfam03990 477974000169 G5 domain; Region: G5; pfam07501 477974000170 3D domain; Region: 3D; cl01439 477974000171 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 477974000172 S-adenosylmethionine binding site [chemical binding]; other site 477974000173 Protein of unknown function (DUF458); Region: DUF458; cl00861 477974000174 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 477974000175 active site 477974000176 YabG peptidase U57; Region: Peptidase_U57; cl05250 477974000177 flagellar assembly protein H; Validated; Region: fliH; PRK05687 477974000178 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 477974000179 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 477974000180 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 477974000181 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 477974000182 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 477974000183 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 477974000184 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 477974000185 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 477974000186 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 477974000187 putative peptidoglycan binding site; other site 477974000188 Protein of unknown function, DUF606; Region: DUF606; cl01273 477974000189 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 477974000190 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 477974000191 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 477974000192 Transcriptional regulators [Transcription]; Region: GntR; COG1802 477974000193 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 477974000194 DNA-binding site [nucleotide binding]; DNA binding site 477974000195 FCD domain; Region: FCD; cl11656 477974000196 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 477974000197 active site 477974000198 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 477974000199 putative active site [active] 477974000200 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 477974000201 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 477974000202 CPxP motif; other site 477974000203 Sulphur transport; Region: Sulf_transp; cl01018 477974000204 Helix-turn-helix domains; Region: HTH; cl00088 477974000205 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 477974000206 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 477974000207 putative dimerization interface [polypeptide binding]; other site 477974000208 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 477974000209 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 477974000210 tetramer interface [polypeptide binding]; other site 477974000211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974000212 catalytic residue [active] 477974000213 SpoVG; Region: SpoVG; cl00915 477974000214 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 477974000215 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 477974000216 Substrate binding site; other site 477974000217 Mg++ binding site; other site 477974000218 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 477974000219 active site 477974000220 substrate binding site [chemical binding]; other site 477974000221 CoA binding site [chemical binding]; other site 477974000222 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 477974000223 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 477974000224 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 477974000225 active site 477974000226 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 477974000227 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 477974000228 5S rRNA interface [nucleotide binding]; other site 477974000229 CTC domain interface [polypeptide binding]; other site 477974000230 L16 interface [polypeptide binding]; other site 477974000231 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 477974000232 putative active site [active] 477974000233 catalytic residue [active] 477974000234 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 477974000235 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 477974000236 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 477974000237 ATP binding site [chemical binding]; other site 477974000238 putative Mg++ binding site [ion binding]; other site 477974000239 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 477974000240 nucleotide binding region [chemical binding]; other site 477974000241 ATP-binding site [chemical binding]; other site 477974000242 TRCF domain; Region: TRCF; cl04088 477974000243 stage V sporulation protein T; Region: spore_V_T; TIGR02851 477974000244 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 477974000245 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 477974000246 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 477974000247 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 477974000248 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 477974000249 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 477974000250 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 477974000251 IHF dimer interface [polypeptide binding]; other site 477974000252 IHF - DNA interface [nucleotide binding]; other site 477974000253 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 477974000254 RNA binding surface [nucleotide binding]; other site 477974000255 YabP family; Region: YabP; cl06766 477974000256 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 477974000257 Helix-turn-helix domains; Region: HTH; cl00088 477974000258 DNA binding residues [nucleotide binding] 477974000259 Septum formation initiator; Region: DivIC; cl11433 477974000260 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 477974000261 ATP phosphoribosyltransferase; Region: HisG; cl15266 477974000262 HisG, C-terminal domain; Region: HisG_C; cl06867 477974000263 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 477974000264 stage II sporulation protein E; Region: spore_II_E; TIGR02865 477974000265 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 477974000266 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 477974000267 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 477974000268 Ligand Binding Site [chemical binding]; other site 477974000269 TilS substrate binding domain; Region: TilS; pfam09179 477974000270 B3/4 domain; Region: B3_4; cl11458 477974000271 FtsH Extracellular; Region: FtsH_ext; pfam06480 477974000272 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 477974000273 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 477974000274 Walker A motif; other site 477974000275 ATP binding site [chemical binding]; other site 477974000276 Walker B motif; other site 477974000277 arginine finger; other site 477974000278 Peptidase family M41; Region: Peptidase_M41; pfam01434 477974000279 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 477974000280 active site 477974000281 multimer interface [polypeptide binding]; other site 477974000282 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 477974000283 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 477974000284 Potassium binding sites [ion binding]; other site 477974000285 Cesium cation binding sites [ion binding]; other site 477974000286 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 477974000287 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 477974000288 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 477974000289 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 477974000290 Walker A motif; other site 477974000291 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974000292 4Fe-4S binding domain; Region: Fer4; cl02805 477974000293 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974000294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974000295 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974000296 4Fe-4S binding domain; Region: Fer4; cl02805 477974000297 4Fe-4S binding domain; Region: Fer4; cl02805 477974000298 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 477974000299 Cysteine-rich domain; Region: CCG; pfam02754 477974000300 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 477974000301 dihydropteroate synthase; Region: DHPS; TIGR01496 477974000302 substrate binding pocket [chemical binding]; other site 477974000303 dimer interface [polypeptide binding]; other site 477974000304 inhibitor binding site; inhibition site 477974000305 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 477974000306 homooctamer interface [polypeptide binding]; other site 477974000307 active site 477974000308 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 477974000309 catalytic center binding site [active] 477974000310 ATP binding site [chemical binding]; other site 477974000311 NAD-dependent deacetylase; Provisional; Region: PRK00481 477974000312 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 477974000313 NAD+ binding site [chemical binding]; other site 477974000314 substrate binding site [chemical binding]; other site 477974000315 Zn binding site [ion binding]; other site 477974000316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974000317 Uncharacterized conserved protein [Function unknown]; Region: COG5495 477974000318 NAD(P) binding pocket [chemical binding]; other site 477974000319 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 477974000320 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 477974000321 oligomerization interface [polypeptide binding]; other site 477974000322 active site 477974000323 metal binding site [ion binding]; metal-binding site 477974000324 pantoate--beta-alanine ligase; Region: panC; TIGR00018 477974000325 Pantoate-beta-alanine ligase; Region: PanC; cd00560 477974000326 active site 477974000327 ATP-binding site [chemical binding]; other site 477974000328 pantoate-binding site; other site 477974000329 HXXH motif; other site 477974000330 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 477974000331 tetramerization interface [polypeptide binding]; other site 477974000332 active site 477974000333 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 477974000334 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 477974000335 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 477974000336 homodimer interface [polypeptide binding]; other site 477974000337 NADP binding site [chemical binding]; other site 477974000338 substrate binding site [chemical binding]; other site 477974000339 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 477974000340 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 477974000341 [4Fe-4S] binding site [ion binding]; other site 477974000342 molybdopterin cofactor binding site; other site 477974000343 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 477974000344 molybdopterin cofactor binding site; other site 477974000345 acetyl-CoA decarbonylase/synthase complex subunit alpha; Validated; Region: PRK00941 477974000346 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 477974000347 ACS interaction site; other site 477974000348 CODH interaction site; other site 477974000349 metal cluster binding site [ion binding]; other site 477974000350 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 477974000351 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 477974000352 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 477974000353 P-loop; other site 477974000354 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974000355 Thymidylate synthase; Region: dTMP_synthase; cl15399 477974000356 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 477974000357 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 477974000358 putative dimer interface [polypeptide binding]; other site 477974000359 [2Fe-2S] cluster binding site [ion binding]; other site 477974000360 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 477974000361 dimer interface [polypeptide binding]; other site 477974000362 [2Fe-2S] cluster binding site [ion binding]; other site 477974000363 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 477974000364 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 477974000365 SLBB domain; Region: SLBB; pfam10531 477974000366 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 477974000367 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 477974000368 4Fe-4S binding domain; Region: Fer4; cl02805 477974000369 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 477974000370 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 477974000371 catalytic loop [active] 477974000372 iron binding site [ion binding]; other site 477974000373 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 477974000374 4Fe-4S binding domain; Region: Fer4; cl02805 477974000375 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 477974000376 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 477974000377 catalytic loop [active] 477974000378 iron binding site [ion binding]; other site 477974000379 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 477974000380 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 477974000381 molybdopterin cofactor binding site; other site 477974000382 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 477974000383 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 477974000384 Putative Fe-S cluster; Region: FeS; pfam04060 477974000385 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 477974000386 substrate binding pocket [chemical binding]; other site 477974000387 dimer interface [polypeptide binding]; other site 477974000388 inhibitor binding site; inhibition site 477974000389 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 477974000390 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 477974000391 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 477974000392 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 477974000393 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 477974000394 FAD binding site [chemical binding]; other site 477974000395 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 477974000396 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 477974000397 Potassium binding sites [ion binding]; other site 477974000398 Cesium cation binding sites [ion binding]; other site 477974000399 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 477974000400 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 477974000401 active site 477974000402 phosphorylation site [posttranslational modification] 477974000403 intermolecular recognition site; other site 477974000404 dimerization interface [polypeptide binding]; other site 477974000405 LytTr DNA-binding domain; Region: LytTR; cl04498 477974000406 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cl00540 477974000407 Quinolinate synthetase A protein; Region: NadA; cl00420 477974000408 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 477974000409 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974000410 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 477974000411 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 477974000412 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 477974000413 dimerization interface [polypeptide binding]; other site 477974000414 active site 477974000415 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 477974000416 Helix-turn-helix domains; Region: HTH; cl00088 477974000417 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 477974000418 Type III pantothenate kinase; Region: Pan_kinase; cl09130 477974000419 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 477974000420 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 477974000421 FMN binding site [chemical binding]; other site 477974000422 active site 477974000423 catalytic residues [active] 477974000424 substrate binding site [chemical binding]; other site 477974000425 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 477974000426 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 477974000427 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 477974000428 Predicted dehydrogenase [General function prediction only]; Region: COG5322 477974000429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974000430 NAD(P) binding pocket [chemical binding]; other site 477974000431 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 477974000432 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 477974000433 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 477974000434 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 477974000435 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 477974000436 dimer interface [polypeptide binding]; other site 477974000437 putative anticodon binding site; other site 477974000438 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 477974000439 motif 1; other site 477974000440 active site 477974000441 motif 2; other site 477974000442 motif 3; other site 477974000443 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 477974000444 active site 477974000445 NTP binding site [chemical binding]; other site 477974000446 metal binding triad [ion binding]; metal-binding site 477974000447 antibiotic binding site [chemical binding]; other site 477974000448 HEPN domain; Region: HEPN; cl00824 477974000449 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 477974000450 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 477974000451 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 477974000452 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 477974000453 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 477974000454 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 477974000455 Sensory domain found in PocR; Region: PocR; pfam10114 477974000456 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 477974000457 PAS domain; Region: PAS_9; pfam13426 477974000458 putative active site [active] 477974000459 heme pocket [chemical binding]; other site 477974000460 PAS domain S-box; Region: sensory_box; TIGR00229 477974000461 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 477974000462 PAS domain S-box; Region: sensory_box; TIGR00229 477974000463 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 477974000464 PAS domain S-box; Region: sensory_box; TIGR00229 477974000465 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 477974000466 PAS domain S-box; Region: sensory_box; TIGR00229 477974000467 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 477974000468 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 477974000469 PAS fold; Region: PAS_4; pfam08448 477974000470 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974000471 metal binding site [ion binding]; metal-binding site 477974000472 active site 477974000473 I-site; other site 477974000474 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974000475 Zn2+ binding site [ion binding]; other site 477974000476 Mg2+ binding site [ion binding]; other site 477974000477 hypothetical protein; Provisional; Region: PRK06851 477974000478 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974000479 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 477974000480 active site 477974000481 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 477974000482 dimer interface [polypeptide binding]; other site 477974000483 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 477974000484 Ligand Binding Site [chemical binding]; other site 477974000485 Molecular Tunnel; other site 477974000486 Nitrogen regulatory protein P-II; Region: P-II; cl00412 477974000487 Nitrogen regulatory protein P-II; Region: P-II; smart00938 477974000488 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 477974000489 nitrogenase reductase; Reviewed; Region: nifH; PRK13233 477974000490 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 477974000491 Nucleotide-binding sites [chemical binding]; other site 477974000492 Switch I region of nucleotide binding site; other site 477974000493 Fe4S4 binding sites [ion binding]; other site 477974000494 Switch II region of nucleotide binding site; other site 477974000495 Nitrogen regulatory protein P-II; Region: P-II; cl00412 477974000496 Nitrogen regulatory protein P-II; Region: P-II; cl00412 477974000497 Nitrogen regulatory protein P-II; Region: P-II; smart00938 477974000498 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 477974000499 Nitrogenase_MoFe_alpha_like: Nitrogenase MoFe protein, alpha subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. Three genetically distinct types of nitrogenase systems are known to exist: a...; Region: Nitrogenase_MoFe_alpha_like; cd01967 477974000500 Nitrogenase_MoFe_beta_like: Nitrogenase MoFe protein, beta subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. This group contains the beta subunits of component 1 of the three known genetically...; Region: Nitrogenase_MoFe_beta_like; cd01965 477974000501 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 477974000502 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 477974000503 Nitrogenase_MoFe_alpha_like: Nitrogenase MoFe protein, alpha subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. Three genetically distinct types of nitrogenase systems are known to exist: a...; Region: Nitrogenase_MoFe_alpha_like; cd01967 477974000504 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 477974000505 Radical SAM superfamily; Region: Radical_SAM; pfam04055 477974000506 FeS/SAM binding site; other site 477974000507 NAD synthetase; Provisional; Region: PRK13981 477974000508 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 477974000509 multimer interface [polypeptide binding]; other site 477974000510 active site 477974000511 catalytic triad [active] 477974000512 protein interface 1 [polypeptide binding]; other site 477974000513 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 477974000514 homodimer interface [polypeptide binding]; other site 477974000515 NAD binding pocket [chemical binding]; other site 477974000516 ATP binding pocket [chemical binding]; other site 477974000517 Mg binding site [ion binding]; other site 477974000518 active-site loop [active] 477974000519 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 477974000520 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 477974000521 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 477974000522 catalytic loop [active] 477974000523 iron binding site [ion binding]; other site 477974000524 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 477974000525 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 477974000526 4Fe-4S binding domain; Region: Fer4; cl02805 477974000527 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 477974000528 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 477974000529 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 477974000530 nickel binding site [ion binding]; other site 477974000531 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 477974000532 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 477974000533 4Fe-4S binding domain; Region: Fer4; cl02805 477974000534 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 477974000535 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 477974000536 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974000537 Transposase domain (DUF772); Region: DUF772; cl15789 477974000538 Polysulphide reductase, NrfD; Region: NrfD; cl01295 477974000539 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 477974000540 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 477974000541 Aspartase; Region: Aspartase; cd01357 477974000542 active sites [active] 477974000543 tetramer interface [polypeptide binding]; other site 477974000544 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 477974000545 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 477974000546 FeS/SAM binding site; other site 477974000547 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 477974000548 amine oxidase; Region: PLN02976 477974000549 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 477974000550 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 477974000551 G1 box; other site 477974000552 GTP/Mg2+ binding site [chemical binding]; other site 477974000553 Switch I region; other site 477974000554 G2 box; other site 477974000555 Switch II region; other site 477974000556 G3 box; other site 477974000557 G4 box; other site 477974000558 G5 box; other site 477974000559 biotin synthase; Provisional; Region: PRK07094 477974000560 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 477974000561 FeS/SAM binding site; other site 477974000562 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 477974000563 DsrE/DsrF-like family; Region: DrsE; cl00672 477974000564 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 477974000565 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 477974000566 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 477974000567 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 477974000568 Coenzyme A binding pocket [chemical binding]; other site 477974000569 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 477974000570 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 477974000571 FeS/SAM binding site; other site 477974000572 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 477974000573 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 477974000574 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 477974000575 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974000576 Transposase domain (DUF772); Region: DUF772; cl15789 477974000577 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 477974000578 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 477974000579 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 477974000580 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 477974000581 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 477974000582 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 477974000583 motif II; other site 477974000584 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 477974000585 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 477974000586 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 477974000587 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 477974000588 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 477974000589 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 477974000590 ADP binding site [chemical binding]; other site 477974000591 phosphagen binding site; other site 477974000592 substrate specificity loop; other site 477974000593 Clp protease ATP binding subunit; Region: clpC; CHL00095 477974000594 Clp amino terminal domain; Region: Clp_N; pfam02861 477974000595 Clp amino terminal domain; Region: Clp_N; pfam02861 477974000596 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 477974000597 Walker A motif; other site 477974000598 ATP binding site [chemical binding]; other site 477974000599 Walker B motif; other site 477974000600 arginine finger; other site 477974000601 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 477974000602 Walker A motif; other site 477974000603 ATP binding site [chemical binding]; other site 477974000604 Walker B motif; other site 477974000605 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 477974000606 DNA repair protein RadA; Provisional; Region: PRK11823 477974000607 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 477974000608 Walker A motif/ATP binding site; other site 477974000609 ATP binding site [chemical binding]; other site 477974000610 Walker B motif; other site 477974000611 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 477974000612 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 477974000613 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 477974000614 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 477974000615 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 477974000616 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 477974000617 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 477974000618 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 477974000619 putative active site [active] 477974000620 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 477974000621 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 477974000622 substrate binding site; other site 477974000623 dimer interface; other site 477974000624 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 477974000625 homotrimer interaction site [polypeptide binding]; other site 477974000626 zinc binding site [ion binding]; other site 477974000627 CDP-binding sites; other site 477974000628 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 477974000629 serine O-acetyltransferase; Region: cysE; TIGR01172 477974000630 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 477974000631 trimer interface [polypeptide binding]; other site 477974000632 active site 477974000633 substrate binding site [chemical binding]; other site 477974000634 CoA binding site [chemical binding]; other site 477974000635 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 477974000636 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 477974000637 active site 477974000638 HIGH motif; other site 477974000639 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 477974000640 KMSKS motif; other site 477974000641 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 477974000642 Thymidylate synthase complementing protein; Region: Thy1; cl03630 477974000643 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 477974000644 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 477974000645 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 477974000646 YacP-like NYN domain; Region: NYN_YacP; cl01491 477974000647 RNA polymerase factor sigma-70; Validated; Region: PRK08295 477974000648 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974000649 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 477974000650 hypothetical protein; Provisional; Region: PRK08577 477974000651 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 477974000652 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 477974000653 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 477974000654 CAAX protease self-immunity; Region: Abi; cl00558 477974000655 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974000656 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 477974000657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974000658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974000659 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 477974000660 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 477974000661 Integrase core domain; Region: rve; cl01316 477974000662 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 477974000663 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 477974000664 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 477974000665 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 477974000666 putative active site [active] 477974000667 elongation factor Tu; Reviewed; Region: PRK00049 477974000668 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 477974000669 G1 box; other site 477974000670 GEF interaction site [polypeptide binding]; other site 477974000671 GTP/Mg2+ binding site [chemical binding]; other site 477974000672 Switch I region; other site 477974000673 G2 box; other site 477974000674 G3 box; other site 477974000675 Switch II region; other site 477974000676 G4 box; other site 477974000677 G5 box; other site 477974000678 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 477974000679 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 477974000680 Antibiotic Binding Site [chemical binding]; other site 477974000681 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 477974000682 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 477974000683 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 477974000684 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 477974000685 putative homodimer interface [polypeptide binding]; other site 477974000686 KOW motif; Region: KOW; cl00354 477974000687 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 477974000688 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 477974000689 23S rRNA interface [nucleotide binding]; other site 477974000690 L7/L12 interface [polypeptide binding]; other site 477974000691 putative thiostrepton binding site; other site 477974000692 L25 interface [polypeptide binding]; other site 477974000693 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 477974000694 mRNA/rRNA interface [nucleotide binding]; other site 477974000695 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 477974000696 23S rRNA interface [nucleotide binding]; other site 477974000697 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 477974000698 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 477974000699 peripheral dimer interface [polypeptide binding]; other site 477974000700 core dimer interface [polypeptide binding]; other site 477974000701 L10 interface [polypeptide binding]; other site 477974000702 L11 interface [polypeptide binding]; other site 477974000703 putative EF-Tu interaction site [polypeptide binding]; other site 477974000704 putative EF-G interaction site [polypeptide binding]; other site 477974000705 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974000706 Transposase domain (DUF772); Region: DUF772; cl15789 477974000707 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 477974000708 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; cl04593 477974000709 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 477974000710 RPB1 interaction site [polypeptide binding]; other site 477974000711 RPB10 interaction site [polypeptide binding]; other site 477974000712 RPB11 interaction site [polypeptide binding]; other site 477974000713 RPB3 interaction site [polypeptide binding]; other site 477974000714 RPB12 interaction site [polypeptide binding]; other site 477974000715 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 477974000716 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 477974000717 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 477974000718 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 477974000719 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 477974000720 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 477974000721 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 477974000722 G-loop; other site 477974000723 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 477974000724 DNA binding site [nucleotide binding] 477974000725 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 477974000726 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974000727 Transposase domain (DUF772); Region: DUF772; cl15789 477974000728 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 477974000729 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 477974000730 S17 interaction site [polypeptide binding]; other site 477974000731 S8 interaction site; other site 477974000732 16S rRNA interaction site [nucleotide binding]; other site 477974000733 streptomycin interaction site [chemical binding]; other site 477974000734 23S rRNA interaction site [nucleotide binding]; other site 477974000735 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 477974000736 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 477974000737 elongation factor G; Reviewed; Region: PRK00007 477974000738 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 477974000739 G1 box; other site 477974000740 putative GEF interaction site [polypeptide binding]; other site 477974000741 GTP/Mg2+ binding site [chemical binding]; other site 477974000742 Switch I region; other site 477974000743 G2 box; other site 477974000744 G3 box; other site 477974000745 Switch II region; other site 477974000746 G4 box; other site 477974000747 G5 box; other site 477974000748 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 477974000749 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 477974000750 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 477974000751 elongation factor Tu; Reviewed; Region: PRK00049 477974000752 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 477974000753 G1 box; other site 477974000754 GEF interaction site [polypeptide binding]; other site 477974000755 GTP/Mg2+ binding site [chemical binding]; other site 477974000756 Switch I region; other site 477974000757 G2 box; other site 477974000758 G3 box; other site 477974000759 Switch II region; other site 477974000760 G4 box; other site 477974000761 G5 box; other site 477974000762 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 477974000763 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 477974000764 Antibiotic Binding Site [chemical binding]; other site 477974000765 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 477974000766 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 477974000767 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 477974000768 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 477974000769 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 477974000770 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 477974000771 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 477974000772 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 477974000773 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 477974000774 putative translocon binding site; other site 477974000775 protein-rRNA interface [nucleotide binding]; other site 477974000776 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 477974000777 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 477974000778 G-X-X-G motif; other site 477974000779 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 477974000780 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 477974000781 23S rRNA interface [nucleotide binding]; other site 477974000782 5S rRNA interface [nucleotide binding]; other site 477974000783 putative antibiotic binding site [chemical binding]; other site 477974000784 L25 interface [polypeptide binding]; other site 477974000785 L27 interface [polypeptide binding]; other site 477974000786 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 477974000787 23S rRNA interface [nucleotide binding]; other site 477974000788 putative translocon interaction site; other site 477974000789 signal recognition particle (SRP54) interaction site; other site 477974000790 L23 interface [polypeptide binding]; other site 477974000791 trigger factor interaction site; other site 477974000792 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 477974000793 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 477974000794 KOW motif; Region: KOW; cl00354 477974000795 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 477974000796 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 477974000797 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 477974000798 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 477974000799 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 477974000800 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 477974000801 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 477974000802 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 477974000803 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 477974000804 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 477974000805 5S rRNA interface [nucleotide binding]; other site 477974000806 23S rRNA interface [nucleotide binding]; other site 477974000807 L5 interface [polypeptide binding]; other site 477974000808 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 477974000809 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 477974000810 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 477974000811 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 477974000812 23S rRNA binding site [nucleotide binding]; other site 477974000813 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 477974000814 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 477974000815 SecY translocase; Region: SecY; pfam00344 477974000816 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 477974000817 active site 477974000818 Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]; Region: RPL14A; COG2163 477974000819 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 477974000820 rRNA binding site [nucleotide binding]; other site 477974000821 predicted 30S ribosome binding site; other site 477974000822 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 477974000823 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 477974000824 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 477974000825 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 477974000826 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 477974000827 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 477974000828 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 477974000829 RNA binding surface [nucleotide binding]; other site 477974000830 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 477974000831 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 477974000832 alphaNTD - beta interaction site [polypeptide binding]; other site 477974000833 alphaNTD homodimer interface [polypeptide binding]; other site 477974000834 alphaNTD - beta' interaction site [polypeptide binding]; other site 477974000835 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 477974000836 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 477974000837 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 477974000838 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 477974000839 dimerization interface 3.5A [polypeptide binding]; other site 477974000840 active site 477974000841 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 477974000842 SmpB-tmRNA interface; other site 477974000843 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974000844 Transposase domain (DUF772); Region: DUF772; cl15789 477974000845 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 477974000846 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 477974000847 ATP binding site [chemical binding]; other site 477974000848 putative Mg++ binding site [ion binding]; other site 477974000849 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 477974000850 nucleotide binding region [chemical binding]; other site 477974000851 ATP-binding site [chemical binding]; other site 477974000852 NMT1-like family; Region: NMT1_2; cl15260 477974000853 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 477974000854 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 477974000855 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 477974000856 FOG: CBS domain [General function prediction only]; Region: COG0517 477974000857 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 477974000858 Cation transport protein; Region: TrkH; cl10514 477974000859 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 477974000860 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 477974000861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974000862 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 477974000863 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974000864 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 477974000865 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 477974000866 putative active site pocket [active] 477974000867 dimerization interface [polypeptide binding]; other site 477974000868 putative catalytic residue [active] 477974000869 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 477974000870 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 477974000871 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974000872 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 477974000873 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 477974000874 Ligand Binding Site [chemical binding]; other site 477974000875 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 477974000876 Sodium:solute symporter family; Region: SSF; cl00456 477974000877 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 477974000878 Cobalt transport protein; Region: CbiQ; cl00463 477974000879 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13647 477974000880 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 477974000881 Walker A/P-loop; other site 477974000882 ATP binding site [chemical binding]; other site 477974000883 Q-loop/lid; other site 477974000884 ABC transporter signature motif; other site 477974000885 Walker B; other site 477974000886 D-loop; other site 477974000887 H-loop/switch region; other site 477974000888 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 477974000889 classical (c) SDRs; Region: SDR_c; cd05233 477974000890 NAD(P) binding site [chemical binding]; other site 477974000891 active site 477974000892 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 477974000893 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 477974000894 ATP binding site [chemical binding]; other site 477974000895 substrate interface [chemical binding]; other site 477974000896 Ubiquitin-like proteins; Region: UBQ; cl00155 477974000897 charged pocket; other site 477974000898 hydrophobic patch; other site 477974000899 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 477974000900 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 477974000901 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 477974000902 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 477974000903 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 477974000904 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 477974000905 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 477974000906 active site residue [active] 477974000907 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 477974000908 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, cyanobacteria; Region: Thr-synth_2; cd01560 477974000909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974000910 catalytic residue [active] 477974000911 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 477974000912 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 477974000913 FMN binding site [chemical binding]; other site 477974000914 substrate binding site [chemical binding]; other site 477974000915 putative catalytic residue [active] 477974000916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 477974000917 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 477974000918 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974000919 Walker A/P-loop; other site 477974000920 ATP binding site [chemical binding]; other site 477974000921 Q-loop/lid; other site 477974000922 ABC transporter signature motif; other site 477974000923 Walker B; other site 477974000924 D-loop; other site 477974000925 H-loop/switch region; other site 477974000926 FtsX-like permease family; Region: FtsX; cl15850 477974000927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 477974000928 Domain of unknown function (DUF947); Region: DUF947; pfam06102 477974000929 Peptidase family M23; Region: Peptidase_M23; pfam01551 477974000930 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 477974000931 C-terminal peptidase (prc); Region: prc; TIGR00225 477974000932 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 477974000933 protein binding site [polypeptide binding]; other site 477974000934 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 477974000935 Catalytic dyad [active] 477974000936 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 477974000937 Predicted RNA-binding protein; Region: RNA_bind_2; cl00662 477974000938 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 477974000939 Fe-S cluster binding site [ion binding]; other site 477974000940 active site 477974000941 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 477974000942 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 477974000943 ligand binding site [chemical binding]; other site 477974000944 excinuclease ABC subunit B; Provisional; Region: PRK05298 477974000945 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 477974000946 ATP binding site [chemical binding]; other site 477974000947 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 477974000948 nucleotide binding region [chemical binding]; other site 477974000949 ATP-binding site [chemical binding]; other site 477974000950 Ultra-violet resistance protein B; Region: UvrB; pfam12344 477974000951 UvrB/uvrC motif; Region: UVR; pfam02151 477974000952 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 477974000953 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 477974000954 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 477974000955 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 477974000956 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 477974000957 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 477974000958 GIY-YIG motif/motif A; other site 477974000959 active site 477974000960 catalytic site [active] 477974000961 putative DNA binding site [nucleotide binding]; other site 477974000962 metal binding site [ion binding]; metal-binding site 477974000963 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 477974000964 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 477974000965 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 477974000966 motif II; other site 477974000967 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 477974000968 motif II; other site 477974000969 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 477974000970 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 477974000971 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 477974000972 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 477974000973 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 477974000974 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_1; cd05017 477974000975 dimer interface [polypeptide binding]; other site 477974000976 active site 477974000977 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_2; cd05637 477974000978 dimer interface [polypeptide binding]; other site 477974000979 active site 477974000980 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 477974000981 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 477974000982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 477974000983 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 477974000984 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 477974000985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974000986 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 477974000987 Phosphoglycerate kinase; Region: PGK; pfam00162 477974000988 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 477974000989 substrate binding site [chemical binding]; other site 477974000990 hinge regions; other site 477974000991 ADP binding site [chemical binding]; other site 477974000992 catalytic site [active] 477974000993 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 477974000994 substrate binding site [chemical binding]; other site 477974000995 dimer interface [polypeptide binding]; other site 477974000996 catalytic triad [active] 477974000997 Sulfatase; Region: Sulfatase; cl10460 477974000998 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 477974000999 enolase; Provisional; Region: eno; PRK00077 477974001000 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 477974001001 dimer interface [polypeptide binding]; other site 477974001002 metal binding site [ion binding]; metal-binding site 477974001003 substrate binding pocket [chemical binding]; other site 477974001004 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 477974001005 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 477974001006 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 477974001007 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 477974001008 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 477974001009 Helix-turn-helix domains; Region: HTH; cl00088 477974001010 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 477974001011 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 477974001012 P loop; other site 477974001013 Nucleotide binding site [chemical binding]; other site 477974001014 DTAP/Switch II; other site 477974001015 Switch I; other site 477974001016 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 477974001017 putative dimer interface [polypeptide binding]; other site 477974001018 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 477974001019 putative ADP-ribose binding site [chemical binding]; other site 477974001020 putative active site [active] 477974001021 IS2 transposase TnpB; Reviewed; Region: PRK09409 477974001022 HTH-like domain; Region: HTH_21; pfam13276 477974001023 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 477974001024 NADPH bind site [chemical binding]; other site 477974001025 putative FMN binding site [chemical binding]; other site 477974001026 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 477974001027 Helix-turn-helix domains; Region: HTH; cl00088 477974001028 Winged helix-turn helix; Region: HTH_29; pfam13551 477974001029 Integrase core domain; Region: rve; cl01316 477974001030 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 477974001031 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 477974001032 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 477974001033 CoenzymeA binding site [chemical binding]; other site 477974001034 subunit interaction site [polypeptide binding]; other site 477974001035 PHB binding site; other site 477974001036 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 477974001037 ribonuclease R; Region: RNase_R; TIGR02063 477974001038 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 477974001039 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 477974001040 RNB domain; Region: RNB; pfam00773 477974001041 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 477974001042 RNA binding site [nucleotide binding]; other site 477974001043 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 477974001044 23S rRNA interface [nucleotide binding]; other site 477974001045 L3 interface [polypeptide binding]; other site 477974001046 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 477974001047 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 477974001048 active site 477974001049 metal binding site [ion binding]; metal-binding site 477974001050 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 477974001051 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 477974001052 active site 477974001053 LysE type translocator; Region: LysE; cl00565 477974001054 hypothetical protein; Provisional; Region: PRK03881 477974001055 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 477974001056 AMMECR1; Region: AMMECR1; cl00911 477974001057 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 477974001058 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 477974001059 FeS/SAM binding site; other site 477974001060 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 477974001061 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001062 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 477974001063 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 477974001064 heterotetramer interface [polypeptide binding]; other site 477974001065 active site pocket [active] 477974001066 cleavage site 477974001067 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 477974001068 feedback inhibition sensing region; other site 477974001069 homohexameric interface [polypeptide binding]; other site 477974001070 nucleotide binding site [chemical binding]; other site 477974001071 N-acetyl-L-glutamate binding site [chemical binding]; other site 477974001072 acetylornithine aminotransferase; Provisional; Region: PRK02627 477974001073 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 477974001074 inhibitor-cofactor binding pocket; inhibition site 477974001075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974001076 catalytic residue [active] 477974001077 ornithine carbamoyltransferase; Provisional; Region: PRK00779 477974001078 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 477974001079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001080 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 477974001081 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 477974001082 ANP binding site [chemical binding]; other site 477974001083 Substrate Binding Site II [chemical binding]; other site 477974001084 Substrate Binding Site I [chemical binding]; other site 477974001085 argininosuccinate lyase; Provisional; Region: PRK00855 477974001086 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 477974001087 active sites [active] 477974001088 tetramer interface [polypeptide binding]; other site 477974001089 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 477974001090 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974001091 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 477974001092 DNA binding residues [nucleotide binding] 477974001093 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 477974001094 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 477974001095 DRTGG domain; Region: DRTGG; cl12147 477974001096 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 477974001097 DHH family; Region: DHH; pfam01368 477974001098 DHHA2 domain; Region: DHHA2; pfam02833 477974001099 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 477974001100 AzlC protein; Region: AzlC; cl00570 477974001101 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 477974001102 homodimer interface [polypeptide binding]; other site 477974001103 substrate-cofactor binding pocket; other site 477974001104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974001105 catalytic residue [active] 477974001106 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 477974001107 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 477974001108 PYR/PP interface [polypeptide binding]; other site 477974001109 dimer interface [polypeptide binding]; other site 477974001110 TPP binding site [chemical binding]; other site 477974001111 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 477974001112 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 477974001113 TPP-binding site [chemical binding]; other site 477974001114 dimer interface [polypeptide binding]; other site 477974001115 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 477974001116 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 477974001117 putative valine binding site [chemical binding]; other site 477974001118 dimer interface [polypeptide binding]; other site 477974001119 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 477974001120 ketol-acid reductoisomerase; Provisional; Region: PRK05479 477974001121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001122 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 477974001123 2-isopropylmalate synthase; Validated; Region: PRK00915 477974001124 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 477974001125 active site 477974001126 catalytic residues [active] 477974001127 metal binding site [ion binding]; metal-binding site 477974001128 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 477974001129 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 477974001130 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 477974001131 substrate binding site [chemical binding]; other site 477974001132 ligand binding site [chemical binding]; other site 477974001133 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 477974001134 substrate binding site [chemical binding]; other site 477974001135 Dehydratase family; Region: ILVD_EDD; cl00340 477974001136 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 477974001137 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 477974001138 active site 477974001139 catalytic residues [active] 477974001140 metal binding site [ion binding]; metal-binding site 477974001141 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 477974001142 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 477974001143 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 477974001144 active site 477974001145 substrate binding site [chemical binding]; other site 477974001146 metal binding site [ion binding]; metal-binding site 477974001147 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 477974001148 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 477974001149 glutaminase active site [active] 477974001150 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 477974001151 dimer interface [polypeptide binding]; other site 477974001152 active site 477974001153 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 477974001154 dimer interface [polypeptide binding]; other site 477974001155 active site 477974001156 Protein of unknown function (DUF499); Region: DUF499; pfam04465 477974001157 ParB-like nuclease domain; Region: ParBc; cl02129 477974001158 Protein of unknown function DUF86; Region: DUF86; cl01031 477974001159 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 477974001160 active site 477974001161 NTP binding site [chemical binding]; other site 477974001162 metal binding triad [ion binding]; metal-binding site 477974001163 antibiotic binding site [chemical binding]; other site 477974001164 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 477974001165 L-lactate permease; Region: Lactate_perm; cl00701 477974001166 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 477974001167 putative active site [active] 477974001168 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 477974001169 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 477974001170 Response regulator receiver domain; Region: Response_reg; pfam00072 477974001171 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 477974001172 active site 477974001173 phosphorylation site [posttranslational modification] 477974001174 intermolecular recognition site; other site 477974001175 dimerization interface [polypeptide binding]; other site 477974001176 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974001177 metal binding site [ion binding]; metal-binding site 477974001178 active site 477974001179 I-site; other site 477974001180 Ubiquitin-like proteins; Region: UBQ; cl00155 477974001181 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 477974001182 GatB domain; Region: GatB_Yqey; cl11497 477974001183 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 477974001184 TIGR02677 family protein; Region: TIGR02677 477974001185 Protein of unknown function (DUF2398); Region: DUF2398; cl09875 477974001186 TIGR02680 family protein; Region: TIGR02680 477974001187 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974001188 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 477974001189 TIGR02679 family protein; Region: TIGR02679 477974001190 Protein of unknown function N-terminus (DUF3323); Region: DUF3323; pfam11796 477974001191 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 477974001192 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974001193 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 477974001194 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 477974001195 dimer interface [polypeptide binding]; other site 477974001196 conserved gate region; other site 477974001197 putative PBP binding loops; other site 477974001198 ABC-ATPase subunit interface; other site 477974001199 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 477974001200 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 477974001201 dimer interface [polypeptide binding]; other site 477974001202 conserved gate region; other site 477974001203 putative PBP binding loops; other site 477974001204 ABC-ATPase subunit interface; other site 477974001205 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 477974001206 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 477974001207 Walker A/P-loop; other site 477974001208 ATP binding site [chemical binding]; other site 477974001209 Q-loop/lid; other site 477974001210 ABC transporter signature motif; other site 477974001211 Walker B; other site 477974001212 D-loop; other site 477974001213 H-loop/switch region; other site 477974001214 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 477974001215 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 477974001216 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 477974001217 Walker A/P-loop; other site 477974001218 ATP binding site [chemical binding]; other site 477974001219 Q-loop/lid; other site 477974001220 ABC transporter signature motif; other site 477974001221 Walker B; other site 477974001222 D-loop; other site 477974001223 H-loop/switch region; other site 477974001224 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 477974001225 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 477974001226 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 477974001227 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 477974001228 ATP-dependent helicase HepA; Validated; Region: PRK04914 477974001229 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 477974001230 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 477974001231 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 477974001232 putative active site [active] 477974001233 putative NTP binding site [chemical binding]; other site 477974001234 putative nucleic acid binding site [nucleotide binding]; other site 477974001235 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974001236 Transposase domain (DUF772); Region: DUF772; cl15789 477974001237 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 477974001238 PemK-like protein; Region: PemK; cl00995 477974001239 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 477974001240 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 477974001241 putative active site [active] 477974001242 homotetrameric interface [polypeptide binding]; other site 477974001243 metal binding site [ion binding]; metal-binding site 477974001244 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 477974001245 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 477974001246 putative active site [active] 477974001247 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 477974001248 active site 477974001249 catalytic residues [active] 477974001250 metal binding site [ion binding]; metal-binding site 477974001251 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 477974001252 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 477974001253 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 477974001254 dimer interface [polypeptide binding]; other site 477974001255 conserved gate region; other site 477974001256 putative PBP binding loops; other site 477974001257 ABC-ATPase subunit interface; other site 477974001258 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974001259 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 477974001260 Walker A/P-loop; other site 477974001261 ATP binding site [chemical binding]; other site 477974001262 Q-loop/lid; other site 477974001263 ABC transporter signature motif; other site 477974001264 Walker B; other site 477974001265 D-loop; other site 477974001266 H-loop/switch region; other site 477974001267 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 477974001268 4Fe-4S binding domain; Region: Fer4; cl02805 477974001269 4Fe-4S binding domain; Region: Fer4; cl02805 477974001270 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 477974001271 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 477974001272 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 477974001273 putative active site [active] 477974001274 Isochorismatase family; Region: Isochorismatase; pfam00857 477974001275 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 477974001276 catalytic triad [active] 477974001277 dimer interface [polypeptide binding]; other site 477974001278 conserved cis-peptide bond; other site 477974001279 CHASE4 domain; Region: CHASE4; cl01308 477974001280 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 477974001281 dimerization interface [polypeptide binding]; other site 477974001282 sensory histidine kinase AtoS; Provisional; Region: PRK11360 477974001283 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 477974001284 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974001285 metal binding site [ion binding]; metal-binding site 477974001286 active site 477974001287 I-site; other site 477974001288 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974001289 Zn2+ binding site [ion binding]; other site 477974001290 Mg2+ binding site [ion binding]; other site 477974001291 Ubiquitin-like proteins; Region: UBQ; cl00155 477974001292 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 477974001293 Protein of unknown function DUF82; Region: DUF82; pfam01927 477974001294 Transposase domain (DUF772); Region: DUF772; cl15789 477974001295 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 477974001296 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]; Region: COG1389 477974001297 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974001298 Transposase domain (DUF772); Region: DUF772; cl15789 477974001299 Protein of unknown function (DUF342); Region: DUF342; pfam03961 477974001300 RDD family; Region: RDD; cl00746 477974001301 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974001302 Transposase domain (DUF772); Region: DUF772; cl15789 477974001303 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 477974001304 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 477974001305 Mechanosensitive ion channel; Region: MS_channel; pfam00924 477974001306 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974001307 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 477974001308 3D domain; Region: 3D; cl01439 477974001309 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 477974001310 EamA-like transporter family; Region: EamA; cl01037 477974001311 EamA-like transporter family; Region: EamA; cl01037 477974001312 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 477974001313 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 477974001314 Transcriptional regulators [Transcription]; Region: GntR; COG1802 477974001315 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 477974001316 DNA-binding site [nucleotide binding]; DNA binding site 477974001317 FCD domain; Region: FCD; cl11656 477974001318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001321 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 477974001322 S-adenosylmethionine binding site [chemical binding]; other site 477974001323 hypothetical protein; Validated; Region: PRK09039 477974001324 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 477974001325 Accessory gene regulator B; Region: AgrB; cl01873 477974001326 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 477974001327 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 477974001328 dimer interface [polypeptide binding]; other site 477974001329 phosphorylation site [posttranslational modification] 477974001330 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 477974001331 ATP binding site [chemical binding]; other site 477974001332 Mg2+ binding site [ion binding]; other site 477974001333 G-X-G motif; other site 477974001334 Sporulation and spore germination; Region: Germane; cl11253 477974001335 PrcB C-terminal; Region: PrcB_C; pfam14343 477974001336 Immunoglobulin-like domain of bacterial spore germination; Region: Gmad2; pfam10648 477974001337 Uncharacterized conserved protein [Function unknown]; Region: COG2006 477974001338 Domain of unknown function (DUF362); Region: DUF362; pfam04015 477974001339 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 477974001340 Clp amino terminal domain; Region: Clp_N; pfam02861 477974001341 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 477974001342 Walker A motif; other site 477974001343 ATP binding site [chemical binding]; other site 477974001344 Walker B motif; other site 477974001345 arginine finger; other site 477974001346 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 477974001347 Walker A motif; other site 477974001348 ATP binding site [chemical binding]; other site 477974001349 Walker B motif; other site 477974001350 arginine finger; other site 477974001351 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 477974001352 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 477974001353 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 477974001354 HSP70 interaction site [polypeptide binding]; other site 477974001355 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 477974001356 substrate binding site [polypeptide binding]; other site 477974001357 dimer interface [polypeptide binding]; other site 477974001358 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 477974001359 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 477974001360 putative dimer interface [polypeptide binding]; other site 477974001361 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 477974001362 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 477974001363 DNA binding residues [nucleotide binding] 477974001364 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 477974001365 active site 477974001366 metal binding site [ion binding]; metal-binding site 477974001367 homotetramer interface [polypeptide binding]; other site 477974001368 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 477974001369 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 477974001370 TIGR01777 family protein; Region: yfcH 477974001371 putative NAD(P) binding site [chemical binding]; other site 477974001372 putative active site [active] 477974001373 Flagellin N-methylase; Region: FliB; cl00497 477974001374 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 477974001375 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 477974001376 4Fe-4S binding domain; Region: Fer4_5; pfam12801 477974001377 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 477974001378 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 477974001379 S-adenosylmethionine binding site [chemical binding]; other site 477974001380 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 477974001381 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 477974001382 putative active site [active] 477974001383 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 477974001384 Histidine kinase; Region: His_kinase; pfam06580 477974001385 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 477974001386 ATP binding site [chemical binding]; other site 477974001387 Mg2+ binding site [ion binding]; other site 477974001388 G-X-G motif; other site 477974001389 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 477974001390 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 477974001391 active site 477974001392 phosphorylation site [posttranslational modification] 477974001393 intermolecular recognition site; other site 477974001394 dimerization interface [polypeptide binding]; other site 477974001395 LytTr DNA-binding domain; Region: LytTR; cl04498 477974001396 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 477974001397 putative carbohydrate kinase; Provisional; Region: PRK10565 477974001398 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 477974001399 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 477974001400 putative substrate binding site [chemical binding]; other site 477974001401 putative ATP binding site [chemical binding]; other site 477974001402 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 477974001403 alanine racemase; Reviewed; Region: alr; PRK00053 477974001404 active site 477974001405 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 477974001406 dimer interface [polypeptide binding]; other site 477974001407 substrate binding site [chemical binding]; other site 477974001408 catalytic residues [active] 477974001409 Nitrogen regulatory protein P-II; Region: P-II; smart00938 477974001410 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 477974001411 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 477974001412 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 477974001413 H+ Antiporter protein; Region: 2A0121; TIGR00900 477974001414 putative substrate translocation pore; other site 477974001415 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 477974001416 hypothetical protein; Reviewed; Region: PRK09588 477974001417 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 477974001418 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 477974001419 active site 477974001420 NTP binding site [chemical binding]; other site 477974001421 metal binding triad [ion binding]; metal-binding site 477974001422 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 477974001423 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 477974001424 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 477974001425 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 477974001426 substrate binding site [chemical binding]; other site 477974001427 multimerization interface [polypeptide binding]; other site 477974001428 ATP binding site [chemical binding]; other site 477974001429 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 477974001430 putative peptidoglycan binding site; other site 477974001431 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 477974001432 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 477974001433 putative peptidoglycan binding site; other site 477974001434 NlpC/P60 family; Region: NLPC_P60; cl11438 477974001435 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 477974001436 MgtE intracellular N domain; Region: MgtE_N; cl15244 477974001437 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 477974001438 Divalent cation transporter; Region: MgtE; cl00786 477974001439 aromatic acid decarboxylase; Validated; Region: PRK05920 477974001440 Flavoprotein; Region: Flavoprotein; cl08021 477974001441 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 477974001442 Recombination protein O N terminal; Region: RecO_N; cl15812 477974001443 Recombination protein O C terminal; Region: RecO_C; pfam02565 477974001444 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 477974001445 dimer interface [polypeptide binding]; other site 477974001446 motif 1; other site 477974001447 active site 477974001448 motif 2; other site 477974001449 motif 3; other site 477974001450 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 477974001451 Helix-turn-helix domains; Region: HTH; cl00088 477974001452 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 477974001453 FOG: CBS domain [General function prediction only]; Region: COG0517 477974001454 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 477974001455 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 477974001456 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 477974001457 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 477974001458 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 477974001459 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 477974001460 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974001461 Zn2+ binding site [ion binding]; other site 477974001462 Mg2+ binding site [ion binding]; other site 477974001463 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 477974001464 DNA primase; Validated; Region: dnaG; PRK05667 477974001465 CHC2 zinc finger; Region: zf-CHC2; cl15369 477974001466 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 477974001467 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 477974001468 active site 477974001469 metal binding site [ion binding]; metal-binding site 477974001470 interdomain interaction site; other site 477974001471 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 477974001472 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 477974001473 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 477974001474 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 477974001475 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974001476 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 477974001477 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 477974001478 DNA binding residues [nucleotide binding] 477974001479 Domain of unknown function (DUF296); Region: DUF296; cl00720 477974001480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001481 Uncharacterized conserved protein [Function unknown]; Region: COG0327 477974001482 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 477974001483 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 477974001484 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 477974001485 active site 477974001486 DNA binding site [nucleotide binding] 477974001487 Int/Topo IB signature motif; other site 477974001488 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 477974001489 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 477974001490 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 477974001491 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 477974001492 ATP binding site [chemical binding]; other site 477974001493 putative Mg++ binding site [ion binding]; other site 477974001494 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 477974001495 nucleotide binding region [chemical binding]; other site 477974001496 ATP-binding site [chemical binding]; other site 477974001497 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 477974001498 KTSC domain; Region: KTSC; pfam13619 477974001499 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 477974001500 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 477974001501 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 477974001502 putative active site [active] 477974001503 putative metal-binding site [ion binding]; other site 477974001504 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 477974001505 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 477974001506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001507 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 477974001508 Protein of unknown function (DUF499); Region: DUF499; pfam04465 477974001509 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 477974001510 active site 477974001511 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 477974001512 YokU-like protein; Region: YokU; cl15819 477974001513 snRNA-activating protein of 50kDa MW C terminal; Region: zf-SNAP50_C; pfam12251 477974001514 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 477974001515 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 477974001516 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 477974001517 active site 477974001518 DNA binding site [nucleotide binding] 477974001519 Int/Topo IB signature motif; other site 477974001520 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 477974001521 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 477974001522 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 477974001523 active site 477974001524 catalytic tetrad [active] 477974001525 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 477974001526 active site 477974001527 metal binding site [ion binding]; metal-binding site 477974001528 homotetramer interface [polypeptide binding]; other site 477974001529 pyrophosphatase PpaX; Provisional; Region: PRK13288 477974001530 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 477974001531 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 477974001532 motif II; other site 477974001533 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974001534 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 477974001535 Flagellin N-methylase; Region: FliB; cl00497 477974001536 Peptidase family M48; Region: Peptidase_M48; cl12018 477974001537 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 477974001538 PAS fold; Region: PAS_4; pfam08448 477974001539 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 477974001540 PAS domain S-box; Region: sensory_box; TIGR00229 477974001541 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 477974001542 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 477974001543 dimer interface [polypeptide binding]; other site 477974001544 phosphorylation site [posttranslational modification] 477974001545 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 477974001546 ATP binding site [chemical binding]; other site 477974001547 Mg2+ binding site [ion binding]; other site 477974001548 G-X-G motif; other site 477974001549 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974001550 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14250 477974001551 Walker A/P-loop; other site 477974001552 ATP binding site [chemical binding]; other site 477974001553 Q-loop/lid; other site 477974001554 ABC transporter signature motif; other site 477974001555 Walker B; other site 477974001556 D-loop; other site 477974001557 H-loop/switch region; other site 477974001558 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 477974001559 TRAM domain; Region: TRAM; cl01282 477974001560 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 477974001561 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 477974001562 S-adenosylmethionine binding site [chemical binding]; other site 477974001563 DsrE/DsrF-like family; Region: DrsE; cl00672 477974001564 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 477974001565 active site 477974001566 PAS domain S-box; Region: sensory_box; TIGR00229 477974001567 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 477974001568 putative active site [active] 477974001569 heme pocket [chemical binding]; other site 477974001570 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974001571 metal binding site [ion binding]; metal-binding site 477974001572 active site 477974001573 I-site; other site 477974001574 GAF domain; Region: GAF_2; pfam13185 477974001575 GAF domain; Region: GAF; cl15785 477974001576 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974001577 Zn2+ binding site [ion binding]; other site 477974001578 Mg2+ binding site [ion binding]; other site 477974001579 HsdM N-terminal domain; Region: HsdM_N; pfam12161 477974001580 Dehydratase family; Region: ILVD_EDD; cl00340 477974001581 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 477974001582 AIR carboxylase; Region: AIRC; cl00310 477974001583 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 477974001584 catalytic residues [active] 477974001585 Rubrerythrin [Energy production and conversion]; Region: COG1592 477974001586 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 477974001587 binuclear metal center [ion binding]; other site 477974001588 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 477974001589 iron binding site [ion binding]; other site 477974001590 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 477974001591 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 477974001592 Cation transport protein; Region: TrkH; cl10514 477974001593 Coat F domain; Region: Coat_F; cl15836 477974001594 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 477974001595 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 477974001596 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 477974001597 FeS/SAM binding site; other site 477974001598 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 477974001599 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 477974001600 FAD binding pocket [chemical binding]; other site 477974001601 FAD binding motif [chemical binding]; other site 477974001602 phosphate binding motif [ion binding]; other site 477974001603 beta-alpha-beta structure motif; other site 477974001604 NAD binding pocket [chemical binding]; other site 477974001605 Iron coordination center [ion binding]; other site 477974001606 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 477974001607 putative oxidoreductase; Provisional; Region: PRK12831 477974001608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001609 Protein of unknown function (DUF964); Region: DUF964; cl01483 477974001610 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 477974001611 MutS domain I; Region: MutS_I; pfam01624 477974001612 MutS domain II; Region: MutS_II; pfam05188 477974001613 MutS family domain IV; Region: MutS_IV; pfam05190 477974001614 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 477974001615 Walker A/P-loop; other site 477974001616 ATP binding site [chemical binding]; other site 477974001617 Q-loop/lid; other site 477974001618 ABC transporter signature motif; other site 477974001619 Walker B; other site 477974001620 D-loop; other site 477974001621 H-loop/switch region; other site 477974001622 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 477974001623 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 477974001624 ATP binding site [chemical binding]; other site 477974001625 Mg2+ binding site [ion binding]; other site 477974001626 G-X-G motif; other site 477974001627 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 477974001628 ATP binding site [chemical binding]; other site 477974001629 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 477974001630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001631 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974001632 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 477974001633 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 477974001634 Sm1 motif; other site 477974001635 intra - hexamer interaction site; other site 477974001636 inter - hexamer interaction site [polypeptide binding]; other site 477974001637 nucleotide binding pocket [chemical binding]; other site 477974001638 Sm2 motif; other site 477974001639 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 477974001640 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 477974001641 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 477974001642 catalytic residue [active] 477974001643 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 477974001644 Predicted amidohydrolase [General function prediction only]; Region: COG0388 477974001645 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 477974001646 putative active site [active] 477974001647 catalytic triad [active] 477974001648 dimer interface [polypeptide binding]; other site 477974001649 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 477974001650 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 477974001651 active site 477974001652 catalytic site [active] 477974001653 substrate binding site [chemical binding]; other site 477974001654 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 477974001655 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974001656 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974001657 putative Mg++ binding site [ion binding]; other site 477974001658 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974001659 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 477974001660 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 477974001661 Cysteine-rich domain; Region: CCG; pfam02754 477974001662 Cysteine-rich domain; Region: CCG; pfam02754 477974001663 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974001664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001665 4Fe-4S binding domain; Region: Fer4; cl02805 477974001666 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 477974001667 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 477974001668 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 477974001669 4Fe-4S binding domain; Region: Fer4; cl02805 477974001670 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 477974001671 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 477974001672 FAD binding pocket [chemical binding]; other site 477974001673 FAD binding motif [chemical binding]; other site 477974001674 phosphate binding motif [ion binding]; other site 477974001675 beta-alpha-beta structure motif; other site 477974001676 NAD binding pocket [chemical binding]; other site 477974001677 Iron coordination center [ion binding]; other site 477974001678 Protein of unknown function (DUF342); Region: DUF342; pfam03961 477974001679 Protein of unknown function (DUF342); Region: DUF342; pfam03961 477974001680 PemK-like protein; Region: PemK; cl00995 477974001681 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974001682 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 477974001683 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 477974001684 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974001685 Zn2+ binding site [ion binding]; other site 477974001686 Mg2+ binding site [ion binding]; other site 477974001687 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974001688 Zn2+ binding site [ion binding]; other site 477974001689 Mg2+ binding site [ion binding]; other site 477974001690 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974001691 Transposase domain (DUF772); Region: DUF772; cl15789 477974001692 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 477974001693 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 477974001694 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 477974001695 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 477974001696 catalytic triad [active] 477974001697 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 477974001698 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 477974001699 Uncharacterized conserved protein [Function unknown]; Region: COG2718 477974001700 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 477974001701 SpoVR like protein; Region: SpoVR; pfam04293 477974001702 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 477974001703 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 477974001704 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 477974001705 putative DNA binding site [nucleotide binding]; other site 477974001706 putative homodimer interface [polypeptide binding]; other site 477974001707 SurA N-terminal domain; Region: SurA_N_3; cl07813 477974001708 PPIC-type PPIASE domain; Region: Rotamase; cl08278 477974001709 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 477974001710 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 477974001711 active site 477974001712 DNA binding site [nucleotide binding] 477974001713 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 477974001714 DNA binding site [nucleotide binding] 477974001715 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 477974001716 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_2; cd04865 477974001717 nucleotide binding site [chemical binding]; other site 477974001718 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 477974001719 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 477974001720 DNA topoisomerase I; Validated; Region: PRK05582 477974001721 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 477974001722 active site 477974001723 interdomain interaction site; other site 477974001724 putative metal-binding site [ion binding]; other site 477974001725 nucleotide binding site [chemical binding]; other site 477974001726 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 477974001727 domain I; other site 477974001728 DNA binding groove [nucleotide binding] 477974001729 phosphate binding site [ion binding]; other site 477974001730 domain II; other site 477974001731 domain III; other site 477974001732 nucleotide binding site [chemical binding]; other site 477974001733 catalytic site [active] 477974001734 domain IV; other site 477974001735 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 477974001736 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 477974001737 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 477974001738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001739 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 477974001740 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 477974001741 active site 477974001742 Int/Topo IB signature motif; other site 477974001743 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 477974001744 active site 477974001745 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 477974001746 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 477974001747 Walker A motif; other site 477974001748 ATP binding site [chemical binding]; other site 477974001749 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974001750 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 477974001751 transcriptional repressor CodY; Validated; Region: PRK04158 477974001752 CodY GAF-like domain; Region: CodY; pfam06018 477974001753 Helix-turn-helix domains; Region: HTH; cl00088 477974001754 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 477974001755 rRNA interaction site [nucleotide binding]; other site 477974001756 S8 interaction site; other site 477974001757 putative laminin-1 binding site; other site 477974001758 elongation factor Ts; Reviewed; Region: tsf; PRK12332 477974001759 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 477974001760 Elongation factor TS; Region: EF_TS; pfam00889 477974001761 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 477974001762 putative nucleotide binding site [chemical binding]; other site 477974001763 uridine monophosphate binding site [chemical binding]; other site 477974001764 homohexameric interface [polypeptide binding]; other site 477974001765 ribosome recycling factor; Reviewed; Region: frr; PRK00083 477974001766 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 round of...; Region: RRF; cd00520 477974001767 hinge region; other site 477974001768 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 477974001769 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 477974001770 catalytic residue [active] 477974001771 putative FPP diphosphate binding site; other site 477974001772 putative FPP binding hydrophobic cleft; other site 477974001773 dimer interface [polypeptide binding]; other site 477974001774 putative IPP diphosphate binding site; other site 477974001775 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 477974001776 Chromate transporter; Region: Chromate_transp; pfam02417 477974001777 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 477974001778 Chromate transporter; Region: Chromate_transp; pfam02417 477974001779 Helix-turn-helix domains; Region: HTH; cl00088 477974001780 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 477974001781 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 477974001782 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 477974001783 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 477974001784 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 477974001785 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 477974001786 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 477974001787 active site 477974001788 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 477974001789 protein binding site [polypeptide binding]; other site 477974001790 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 477974001791 putative substrate binding region [chemical binding]; other site 477974001792 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 477974001793 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 477974001794 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 477974001795 prolyl-tRNA synthetase; Provisional; Region: PRK09194 477974001796 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 formation of...; Region: ProRS_core_prok; cd00779 477974001797 dimer interface [polypeptide binding]; other site 477974001798 motif 1; other site 477974001799 active site 477974001800 motif 2; other site 477974001801 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 477974001802 putative deacylase active site [active] 477974001803 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 attaches...; Region: class_II_aaRS-like_core; cl00268 477974001804 active site 477974001805 motif 3; other site 477974001806 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 477974001807 anticodon binding site; other site 477974001808 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 477974001809 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 477974001810 dimer interface [polypeptide binding]; other site 477974001811 active site residues [active] 477974001812 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 477974001813 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 477974001814 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 477974001815 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 477974001816 FeS/SAM binding site; other site 477974001817 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 477974001818 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974001819 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 477974001820 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 477974001821 catalytic motif [active] 477974001822 Zn binding site [ion binding]; other site 477974001823 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; cl00161 477974001824 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 477974001825 Lumazine binding domain; Region: Lum_binding; pfam00677 477974001826 Lumazine binding domain; Region: Lum_binding; pfam00677 477974001827 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 477974001828 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 477974001829 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 477974001830 dimerization interface [polypeptide binding]; other site 477974001831 active site 477974001832 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 477974001833 homopentamer interface [polypeptide binding]; other site 477974001834 active site 477974001835 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 477974001836 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 477974001837 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 477974001838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 477974001839 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 477974001840 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 477974001841 Germination protease; Region: Peptidase_A25; cl04057 477974001842 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 477974001843 S-adenosylmethionine binding site [chemical binding]; other site 477974001844 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 477974001845 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 477974001846 active site 477974001847 (T/H)XGH motif; other site 477974001848 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 477974001849 Nucleoside recognition; Region: Gate; cl00486 477974001850 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 477974001851 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 477974001852 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 477974001853 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 477974001854 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 477974001855 dimer interface [polypeptide binding]; other site 477974001856 active site 477974001857 CoA binding pocket [chemical binding]; other site 477974001858 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 477974001859 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 477974001860 FMN binding site [chemical binding]; other site 477974001861 substrate binding site [chemical binding]; other site 477974001862 putative catalytic residue [active] 477974001863 Acyl transferase domain; Region: Acyl_transf_1; cl08282 477974001864 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 477974001865 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001866 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 477974001867 NAD(P) binding site [chemical binding]; other site 477974001868 active site 477974001869 Phosphopantetheine attachment site; Region: PP-binding; cl09936 477974001870 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 477974001871 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 477974001872 dimer interface [polypeptide binding]; other site 477974001873 active site 477974001874 ribonuclease III; Reviewed; Region: rnc; PRK00102 477974001875 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 477974001876 dimerization interface [polypeptide binding]; other site 477974001877 active site 477974001878 metal binding site [ion binding]; metal-binding site 477974001879 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 477974001880 dsRNA binding site [nucleotide binding]; other site 477974001881 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 477974001882 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 477974001883 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 477974001884 P loop; other site 477974001885 GTP binding site [chemical binding]; other site 477974001886 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 477974001887 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 477974001888 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 477974001889 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 477974001890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974001891 oligomerization interface [polypeptide binding]; other site 477974001892 active site 477974001893 NAD+ binding site [chemical binding]; other site 477974001894 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 477974001895 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 477974001896 intersubunit interface [polypeptide binding]; other site 477974001897 active site 477974001898 Zn2+ binding site [ion binding]; other site 477974001899 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 477974001900 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 477974001901 active site 477974001902 putative substrate binding pocket [chemical binding]; other site 477974001903 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 477974001904 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 477974001905 inhibitor-cofactor binding pocket; inhibition site 477974001906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974001907 catalytic residue [active] 477974001908 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 477974001909 DNA binding residues [nucleotide binding] 477974001910 signal recognition particle protein; Provisional; Region: PRK10867 477974001911 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 477974001912 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 477974001913 P loop; other site 477974001914 GTP binding site [chemical binding]; other site 477974001915 Signal peptide binding domain; Region: SRP_SPB; pfam02978 477974001916 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 477974001917 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 477974001918 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 477974001919 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 477974001920 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 477974001921 RimM N-terminal domain; Region: RimM; pfam01782 477974001922 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 477974001923 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 477974001924 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 477974001925 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 477974001926 Catalytic site [active] 477974001927 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 477974001928 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 477974001929 GTP/Mg2+ binding site [chemical binding]; other site 477974001930 G4 box; other site 477974001931 G5 box; other site 477974001932 G1 box; other site 477974001933 Switch I region; other site 477974001934 G2 box; other site 477974001935 G3 box; other site 477974001936 Switch II region; other site 477974001937 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 477974001938 RNA/DNA hybrid binding site [nucleotide binding]; other site 477974001939 active site 477974001940 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 477974001941 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 477974001942 putative active site [active] 477974001943 putative metal binding site [ion binding]; other site 477974001944 Restriction endonuclease; Region: Mrr_cat; cl00516 477974001945 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 477974001946 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 477974001947 FeS/SAM binding site; other site 477974001948 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 477974001949 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 477974001950 putative ligand binding site [chemical binding]; other site 477974001951 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 477974001952 TM-ABC transporter signature motif; other site 477974001953 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 477974001954 TM-ABC transporter signature motif; other site 477974001955 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 477974001956 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 477974001957 Walker A/P-loop; other site 477974001958 ATP binding site [chemical binding]; other site 477974001959 Q-loop/lid; other site 477974001960 ABC transporter signature motif; other site 477974001961 Walker B; other site 477974001962 D-loop; other site 477974001963 H-loop/switch region; other site 477974001964 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 477974001965 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 477974001966 Walker A/P-loop; other site 477974001967 ATP binding site [chemical binding]; other site 477974001968 Q-loop/lid; other site 477974001969 ABC transporter signature motif; other site 477974001970 Walker B; other site 477974001971 D-loop; other site 477974001972 H-loop/switch region; other site 477974001973 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 477974001974 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 477974001975 S-adenosylmethionine binding site [chemical binding]; other site 477974001976 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 477974001977 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 477974001978 dimer interface [polypeptide binding]; other site 477974001979 active site 477974001980 GAF domain; Region: GAF_2; pfam13185 477974001981 GAF domain; Region: GAF; cl15785 477974001982 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 477974001983 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 477974001984 putative active site [active] 477974001985 heme pocket [chemical binding]; other site 477974001986 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 477974001987 dimer interface [polypeptide binding]; other site 477974001988 phosphorylation site [posttranslational modification] 477974001989 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 477974001990 ATP binding site [chemical binding]; other site 477974001991 Mg2+ binding site [ion binding]; other site 477974001992 G-X-G motif; other site 477974001993 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 477974001994 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 477974001995 GAF domain; Region: GAF; cl15785 477974001996 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 477974001997 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 477974001998 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 477974001999 dimer interface [polypeptide binding]; other site 477974002000 phosphorylation site [posttranslational modification] 477974002001 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 477974002002 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 477974002003 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 477974002004 active site 477974002005 phosphorylation site [posttranslational modification] 477974002006 intermolecular recognition site; other site 477974002007 dimerization interface [polypeptide binding]; other site 477974002008 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974002009 Zn2+ binding site [ion binding]; other site 477974002010 Mg2+ binding site [ion binding]; other site 477974002011 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 477974002012 NADPH bind site [chemical binding]; other site 477974002013 putative FMN binding site [chemical binding]; other site 477974002014 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 477974002015 GAF domain; Region: GAF_2; pfam13185 477974002016 GAF domain; Region: GAF; cl15785 477974002017 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974002018 Zn2+ binding site [ion binding]; other site 477974002019 Mg2+ binding site [ion binding]; other site 477974002020 Cache domain; Region: Cache_1; pfam02743 477974002021 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 477974002022 dimerization interface [polypeptide binding]; other site 477974002023 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 477974002024 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 477974002025 dimer interface [polypeptide binding]; other site 477974002026 putative CheW interface [polypeptide binding]; other site 477974002027 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 477974002028 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 477974002029 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 477974002030 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; cl09108 477974002031 Protein of unknown function (DUF1670); Region: DUF1670; pfam07900 477974002032 circadian clock protein KaiC; Reviewed; Region: PRK09302 477974002033 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974002034 Walker A motif; other site 477974002035 ATP binding site [chemical binding]; other site 477974002036 Walker B motif; other site 477974002037 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974002038 ATP binding site [chemical binding]; other site 477974002039 Walker B motif; other site 477974002040 GAF domain; Region: GAF; cl15785 477974002041 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974002042 metal binding site [ion binding]; metal-binding site 477974002043 active site 477974002044 I-site; other site 477974002045 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 477974002046 GAF domain; Region: GAF; cl15785 477974002047 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974002048 Zn2+ binding site [ion binding]; other site 477974002049 Mg2+ binding site [ion binding]; other site 477974002050 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 477974002051 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 477974002052 Transposase domain (DUF772); Region: DUF772; cl15789 477974002053 Transposase domain (DUF772); Region: DUF772; cl15789 477974002054 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 477974002055 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974002056 metal binding site [ion binding]; metal-binding site 477974002057 active site 477974002058 I-site; other site 477974002059 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974002060 metal binding site [ion binding]; metal-binding site 477974002061 active site 477974002062 I-site; other site 477974002063 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 477974002064 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 477974002065 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 477974002066 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 477974002067 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 477974002068 Integrase core domain; Region: rve; cl01316 477974002069 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 477974002070 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 477974002071 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974002072 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 477974002073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974002074 Restriction endonuclease; Region: Mrr_cat; cl00516 477974002075 Uncharacterized conserved protein [Function unknown]; Region: COG4748 477974002076 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 477974002077 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 477974002078 non-specific DNA binding site [nucleotide binding]; other site 477974002079 salt bridge; other site 477974002080 sequence-specific DNA binding site [nucleotide binding]; other site 477974002081 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 477974002082 Catalytic site [active] 477974002083 Restriction endonuclease; Region: Mrr_cat; cl00516 477974002084 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974002085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 477974002086 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 477974002087 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 477974002088 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 477974002089 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 477974002090 Probable transposase; Region: OrfB_IS605; pfam01385 477974002091 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 477974002092 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 477974002093 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 477974002094 Transposase [DNA replication, recombination, and repair]; Region: COG5421 477974002095 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 477974002096 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 477974002097 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974002098 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 477974002099 active site 477974002100 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 477974002101 translocation protein TolB; Provisional; Region: tolB; PRK04922 477974002102 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 477974002103 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 477974002104 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 477974002105 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 477974002106 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 477974002107 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 477974002108 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 477974002109 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 477974002110 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 477974002111 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 477974002112 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974002113 HTH-like domain; Region: HTH_21; pfam13276 477974002114 Integrase core domain; Region: rve; cl01316 477974002115 Helix-turn-helix domains; Region: HTH; cl00088 477974002116 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 477974002117 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 477974002118 ATP binding site [chemical binding]; other site 477974002119 Mg2+ binding site [ion binding]; other site 477974002120 G-X-G motif; other site 477974002121 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 477974002122 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 477974002123 active site 477974002124 phosphorylation site [posttranslational modification] 477974002125 intermolecular recognition site; other site 477974002126 dimerization interface [polypeptide binding]; other site 477974002127 LytTr DNA-binding domain; Region: LytTR; cl04498 477974002128 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 477974002129 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 477974002130 LexA repressor; Validated; Region: PRK00215 477974002131 Helix-turn-helix domains; Region: HTH; cl00088 477974002132 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 477974002133 Catalytic site [active] 477974002134 DNA polymerase IV; Reviewed; Region: PRK03103 477974002135 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 477974002136 active site 477974002137 DNA binding site [nucleotide binding] 477974002138 Probable transposase; Region: OrfB_IS605; pfam01385 477974002139 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 477974002140 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 477974002141 non-specific DNA binding site [nucleotide binding]; other site 477974002142 salt bridge; other site 477974002143 sequence-specific DNA binding site [nucleotide binding]; other site 477974002144 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 477974002145 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 477974002146 YcfA-like protein; Region: YcfA; cl00752 477974002147 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974002148 PAS domain S-box; Region: sensory_box; TIGR00229 477974002149 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 477974002150 putative active site [active] 477974002151 heme pocket [chemical binding]; other site 477974002152 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974002153 metal binding site [ion binding]; metal-binding site 477974002154 active site 477974002155 I-site; other site 477974002156 GAF domain; Region: GAF_2; pfam13185 477974002157 GAF domain; Region: GAF; cl15785 477974002158 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974002159 Zn2+ binding site [ion binding]; other site 477974002160 Mg2+ binding site [ion binding]; other site 477974002161 HsdM N-terminal domain; Region: HsdM_N; pfam12161 477974002162 phosphoenolpyruvate carboxylase, archaeal type; Region: PEPCase_arch; TIGR02751 477974002163 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 477974002164 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 477974002165 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 477974002166 active site 477974002167 DNA binding site [nucleotide binding] 477974002168 Int/Topo IB signature motif; other site 477974002169 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 477974002170 non-specific DNA binding site [nucleotide binding]; other site 477974002171 salt bridge; other site 477974002172 sequence-specific DNA binding site [nucleotide binding]; other site 477974002173 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 477974002174 non-specific DNA binding site [nucleotide binding]; other site 477974002175 salt bridge; other site 477974002176 sequence-specific DNA binding site [nucleotide binding]; other site 477974002177 Bacterial Ig-like domain; Region: Big_5; cl01012 477974002178 Bacterial Ig-like domain; Region: Big_5; cl01012 477974002179 S-layer homology domain; Region: SLH; pfam00395 477974002180 S-layer homology domain; Region: SLH; pfam00395 477974002181 S-layer homology domain; Region: SLH; pfam00395 477974002182 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974002183 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 477974002184 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 477974002185 ligand binding site [chemical binding]; other site 477974002186 flexible hinge region; other site 477974002187 Helix-turn-helix domains; Region: HTH; cl00088 477974002188 Probable transposase; Region: OrfB_IS605; pfam01385 477974002189 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 477974002190 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 477974002191 putative NTP binding site [chemical binding]; other site 477974002192 Integrase core domain; Region: rve; cl01316 477974002193 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 477974002194 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 477974002195 transmembrane helices; other site 477974002196 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 477974002197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974002198 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 477974002199 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 477974002200 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974002201 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974002202 4Fe-4S binding domain; Region: Fer4; cl02805 477974002203 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 477974002204 Transposase domain (DUF772); Region: DUF772; cl15789 477974002205 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974002206 Transposase domain (DUF772); Region: DUF772; cl15789 477974002207 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 477974002208 Catalytic site; other site 477974002209 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 477974002210 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 477974002211 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 477974002212 active site 477974002213 DNA binding site [nucleotide binding] 477974002214 Int/Topo IB signature motif; other site 477974002215 Restriction endonuclease; Region: Mrr_cat; cl00516 477974002216 Protein of unknown function DUF262; Region: DUF262; cl14890 477974002217 Protein of unknown function DUF262; Region: DUF262; cl14890 477974002218 hypothetical protein; Provisional; Region: PRK13795 477974002219 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 477974002220 Active Sites [active] 477974002221 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 477974002222 Putative ATP-dependent Lon protease; Region: Lon_2; cl11979 477974002223 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 477974002224 putative active site pocket [active] 477974002225 dimerization interface [polypeptide binding]; other site 477974002226 putative catalytic residue [active] 477974002227 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 477974002228 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 477974002229 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 477974002230 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974002231 RRXRR protein; Region: RRXRR; pfam14239 477974002232 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 477974002233 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974002234 Walker A motif; other site 477974002235 ATP binding site [chemical binding]; other site 477974002236 Walker B motif; other site 477974002237 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 477974002238 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 477974002239 ATP binding site [chemical binding]; other site 477974002240 putative Mg++ binding site [ion binding]; other site 477974002241 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 477974002242 nucleotide binding region [chemical binding]; other site 477974002243 ATP-binding site [chemical binding]; other site 477974002244 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 477974002245 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974002246 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 477974002247 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974002248 Family description; Region: UvrD_C_2; cl15862 477974002249 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 477974002250 catalytic residues [active] 477974002251 catalytic nucleophile [active] 477974002252 Recombinase; Region: Recombinase; pfam07508 477974002253 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 477974002254 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 477974002255 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 477974002256 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974002257 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 477974002258 FOG: CBS domain [General function prediction only]; Region: COG0517 477974002259 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 477974002260 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974002261 metal binding site [ion binding]; metal-binding site 477974002262 active site 477974002263 I-site; other site 477974002264 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 477974002265 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 477974002266 putative active site [active] 477974002267 heme pocket [chemical binding]; other site 477974002268 PAS fold; Region: PAS_4; pfam08448 477974002269 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974002270 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 477974002271 metal binding site [ion binding]; metal-binding site 477974002272 active site 477974002273 I-site; other site 477974002274 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974002275 Zn2+ binding site [ion binding]; other site 477974002276 Mg2+ binding site [ion binding]; other site 477974002277 Uncharacterized conserved protein [Function unknown]; Region: COG3287 477974002278 FIST N domain; Region: FIST; cl10701 477974002279 FIST C domain; Region: FIST_C; pfam10442 477974002280 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 477974002281 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 477974002282 motif II; other site 477974002283 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 477974002284 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 477974002285 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 477974002286 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 477974002287 Clp protease; Region: CLP_protease; pfam00574 477974002288 active site 477974002289 YlzJ-like protein; Region: YlzJ; pfam14035 477974002290 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 477974002291 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 477974002292 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 477974002293 intersubunit interface [polypeptide binding]; other site 477974002294 Bacitracin resistance protein BacA; Region: BacA; cl00858 477974002295 Bifunctional nuclease; Region: DNase-RNase; cl00553 477974002296 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 477974002297 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974002298 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 477974002299 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 477974002300 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 477974002301 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 477974002302 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 477974002303 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 477974002304 FeS/SAM binding site; other site 477974002305 TRAM domain; Region: TRAM; cl01282 477974002306 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 477974002307 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 477974002308 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 477974002309 Walker A motif; other site 477974002310 ATP binding site [chemical binding]; other site 477974002311 Walker B motif; other site 477974002312 arginine finger; other site 477974002313 Peptidase family M41; Region: Peptidase_M41; pfam01434 477974002314 competence damage-inducible protein A; Provisional; Region: PRK00549 477974002315 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 477974002316 putative MPT binding site; other site 477974002317 Competence-damaged protein; Region: CinA; cl00666 477974002318 recombinase A; Provisional; Region: recA; PRK09354 477974002319 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 477974002320 hexamer interface [polypeptide binding]; other site 477974002321 Walker A motif; other site 477974002322 ATP binding site [chemical binding]; other site 477974002323 Walker B motif; other site 477974002324 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 477974002325 Catalytic site; other site 477974002326 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 477974002327 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 477974002328 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 477974002329 Probable transposase; Region: OrfB_IS605; pfam01385 477974002330 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 477974002331 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 477974002332 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974002333 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974002334 Protein of unknown function (DUF554); Region: DUF554; cl00784 477974002335 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 477974002336 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 477974002337 trehalose synthase; Region: treS_nterm; TIGR02456 477974002338 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 477974002339 active site 477974002340 catalytic site [active] 477974002341 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 477974002342 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 477974002343 dimer interface [polypeptide binding]; other site 477974002344 catalytic triad [active] 477974002345 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 477974002346 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 477974002347 dimer interface [polypeptide binding]; other site 477974002348 putative CheW interface [polypeptide binding]; other site 477974002349 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 477974002350 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 477974002351 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 477974002352 active site 477974002353 ATP binding site [chemical binding]; other site 477974002354 Uncharacterized membrane protein [Function unknown]; Region: COG3949 477974002355 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 477974002356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974002357 Ribulose 1,5-bisphosphate synthetase, converts PRPP to RuBP, flavoprotein [Carbohydrate transport and metabolism]; Region: THI4; COG1635 477974002358 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 477974002359 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 477974002360 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 477974002361 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 477974002362 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974002363 putative ADP-binding pocket [chemical binding]; other site 477974002364 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 477974002365 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 477974002366 Substrate binding site; other site 477974002367 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 477974002368 phosphomannomutase CpsG; Provisional; Region: PRK15414 477974002369 active site 477974002370 substrate binding site [chemical binding]; other site 477974002371 metal binding site [ion binding]; metal-binding site 477974002372 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 477974002373 active site 477974002374 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 477974002375 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974002376 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 477974002377 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 477974002378 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 477974002379 Sulfatase; Region: Sulfatase; cl10460 477974002380 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 477974002381 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 477974002382 ACS interaction site; other site 477974002383 CODH interaction site; other site 477974002384 metal cluster binding site [ion binding]; other site 477974002385 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 477974002386 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 477974002387 metal cluster binding site [ion binding]; other site 477974002388 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 477974002389 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 477974002390 Putative Fe-S cluster; Region: FeS; pfam04060 477974002391 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 477974002392 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 477974002393 catalytic loop [active] 477974002394 iron binding site [ion binding]; other site 477974002395 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 477974002396 P-loop; other site 477974002397 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 477974002398 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 477974002399 substrate binding pocket [chemical binding]; other site 477974002400 dimer interface [polypeptide binding]; other site 477974002401 inhibitor binding site; inhibition site 477974002402 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974002403 4Fe-4S binding domain; Region: Fer4; cl02805 477974002404 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974002405 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974002406 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 477974002407 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 477974002408 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 477974002409 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 477974002410 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 477974002411 FAD binding site [chemical binding]; other site 477974002412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974002413 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 477974002414 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 477974002415 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 477974002416 Ligand Binding Site [chemical binding]; other site 477974002417 Tetratricopeptide repeat; Region: TPR_16; pfam13432 477974002418 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; cl15754 477974002419 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 477974002420 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 477974002421 Protein of unknown function (DUF456); Region: DUF456; cl01069 477974002422 Protein of unknown function (DUF503); Region: DUF503; cl00669 477974002423 Transposase IS200 like; Region: Y1_Tnp; cl00848 477974002424 Probable transposase; Region: OrfB_IS605; pfam01385 477974002425 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 477974002426 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 477974002427 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 477974002428 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 477974002429 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 477974002430 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 477974002431 Walker A motif; other site 477974002432 ATP binding site [chemical binding]; other site 477974002433 Walker B motif; other site 477974002434 arginine finger; other site 477974002435 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 477974002436 putative peptidoglycan binding site; other site 477974002437 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 477974002438 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 477974002439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974002440 CoA-ligase; Region: Ligase_CoA; cl02894 477974002441 ATP-grasp domain; Region: ATP-grasp_4; cl03087 477974002442 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 477974002443 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974002444 DRTGG domain; Region: DRTGG; cl12147 477974002445 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; cl09772 477974002446 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 477974002447 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 477974002448 DHH family; Region: DHH; pfam01368 477974002449 DHHA1 domain; Region: DHHA1; pfam02272 477974002450 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 477974002451 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 477974002452 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 477974002453 synthetase active site [active] 477974002454 NTP binding site [chemical binding]; other site 477974002455 metal binding site [ion binding]; metal-binding site 477974002456 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 477974002457 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 477974002458 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 477974002459 dimerization interface [polypeptide binding]; other site 477974002460 putative tRNAtyr binding site [nucleotide binding]; other site 477974002461 putative active site [active] 477974002462 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 477974002463 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 477974002464 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 477974002465 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 ATP-dependent...; Region: HisRS-like_core; cd00773 477974002466 dimer interface [polypeptide binding]; other site 477974002467 motif 1; other site 477974002468 active site 477974002469 motif 2; other site 477974002470 motif 3; other site 477974002471 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 477974002472 anticodon binding site; other site 477974002473 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 477974002474 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 477974002475 dimer interface [polypeptide binding]; other site 477974002476 anticodon binding site; other site 477974002477 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 the...; Region: AspRS_core; cd00777 477974002478 homodimer interface [polypeptide binding]; other site 477974002479 motif 1; other site 477974002480 active site 477974002481 motif 2; other site 477974002482 GAD domain; Region: GAD; pfam02938 477974002483 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 attaches...; Region: class_II_aaRS-like_core; cl00268 477974002484 active site 477974002485 motif 3; other site 477974002486 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 477974002487 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 477974002488 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 477974002489 catalytic residue [active] 477974002490 ApbE family; Region: ApbE; cl00643 477974002491 NIL domain; Region: NIL; cl09633 477974002492 4Fe-4S binding domain; Region: Fer4; cl02805 477974002493 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 477974002494 Domain of unknown function DUF39; Region: DUF39; cl14897 477974002495 putative methanogenesis marker 16 metalloprotein; Region: methan_mark_16; TIGR03287 477974002496 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 477974002497 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 formation of...; Region: AlaRS_core; cd00673 477974002498 motif 1; other site 477974002499 active site 477974002500 motif 2; other site 477974002501 motif 3; other site 477974002502 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 477974002503 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 477974002504 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 477974002505 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 477974002506 active site 477974002507 catalytic tetrad [active] 477974002508 2-ketoisovalerate ferredoxin oxidoreductase subunit delta; Reviewed; Region: vorD; PRK09623 477974002509 4Fe-4S binding domain; Region: Fer4; cl02805 477974002510 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 includes...; Region: RuvC_resolvase; cl00243 477974002511 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 477974002512 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 477974002513 VanW like protein; Region: VanW; pfam04294 477974002514 G5 domain; Region: G5; pfam07501 477974002515 YceG-like family; Region: YceG; pfam02618 477974002516 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 477974002517 dimerization interface [polypeptide binding]; other site 477974002518 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 477974002519 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 477974002520 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 477974002521 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 477974002522 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 477974002523 catalytic residues [active] 477974002524 ribosome maturation protein RimP; Reviewed; Region: PRK00092 477974002525 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 477974002526 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 477974002527 Sm1 motif; other site 477974002528 predicted subunit interaction site [polypeptide binding]; other site 477974002529 RNA binding pocket [nucleotide binding]; other site 477974002530 Sm2 motif; other site 477974002531 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 477974002532 NusA N-terminal domain; Region: NusA_N; pfam08529 477974002533 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 477974002534 RNA binding site [nucleotide binding]; other site 477974002535 homodimer interface [polypeptide binding]; other site 477974002536 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 477974002537 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 477974002538 G-X-X-G motif; other site 477974002539 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 477974002540 putative RNA binding cleft [nucleotide binding]; other site 477974002541 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 477974002542 translation initiation factor IF-2; Validated; Region: infB; PRK05306 477974002543 translation initiation factor IF-2; Region: IF-2; TIGR00487 477974002544 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 477974002545 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 477974002546 G1 box; other site 477974002547 putative GEF interaction site [polypeptide binding]; other site 477974002548 GTP/Mg2+ binding site [chemical binding]; other site 477974002549 Switch I region; other site 477974002550 G2 box; other site 477974002551 G3 box; other site 477974002552 Switch II region; other site 477974002553 G4 box; other site 477974002554 G5 box; other site 477974002555 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 477974002556 Translation-initiation factor 2; Region: IF-2; pfam11987 477974002557 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 477974002558 Ribosome-binding factor A; Region: RBFA; cl00542 477974002559 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 477974002560 DHH family; Region: DHH; pfam01368 477974002561 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 477974002562 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 477974002563 RNA binding site [nucleotide binding]; other site 477974002564 active site 477974002565 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 477974002566 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 477974002567 active site 477974002568 Riboflavin kinase; Region: Flavokinase; cl03312 477974002569 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 477974002570 16S/18S rRNA binding site [nucleotide binding]; other site 477974002571 S13e-L30e interaction site [polypeptide binding]; other site 477974002572 25S rRNA binding site [nucleotide binding]; other site 477974002573 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 477974002574 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 477974002575 RNase E interface [polypeptide binding]; other site 477974002576 trimer interface [polypeptide binding]; other site 477974002577 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 477974002578 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 477974002579 RNase E interface [polypeptide binding]; other site 477974002580 trimer interface [polypeptide binding]; other site 477974002581 active site 477974002582 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 477974002583 putative nucleic acid binding region [nucleotide binding]; other site 477974002584 G-X-X-G motif; other site 477974002585 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 477974002586 RNA binding site [nucleotide binding]; other site 477974002587 domain interface; other site 477974002588 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 477974002589 NodB motif; other site 477974002590 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 477974002591 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 477974002592 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 477974002593 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 477974002594 trimer interface [polypeptide binding]; other site 477974002595 active site 477974002596 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 477974002597 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 477974002598 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 477974002599 active site 477974002600 dihydrodipicolinate reductase; Provisional; Region: PRK00048 477974002601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974002602 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 477974002603 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 477974002604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974002605 NAD(P) binding pocket [chemical binding]; other site 477974002606 Flavoprotein; Region: Flavoprotein; cl08021 477974002607 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 477974002608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974002609 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 477974002610 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 477974002611 dihydrodipicolinate synthase; Region: dapA; TIGR00674 477974002612 dimer interface [polypeptide binding]; other site 477974002613 active site 477974002614 catalytic residue [active] 477974002615 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 477974002616 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 477974002617 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 477974002618 lipoprotein signal peptidase; Provisional; Region: PRK14787 477974002619 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 477974002620 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 477974002621 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 477974002622 RNA binding surface [nucleotide binding]; other site 477974002623 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 477974002624 active site 477974002625 Helix-turn-helix domains; Region: HTH; cl00088 477974002626 Winged helix-turn helix; Region: HTH_29; pfam13551 477974002627 Integrase core domain; Region: rve; cl01316 477974002628 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 477974002629 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974002630 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974002631 Walker A motif; other site 477974002632 ATP binding site [chemical binding]; other site 477974002633 Walker B motif; other site 477974002634 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 477974002635 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 477974002636 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 477974002637 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 477974002638 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 477974002639 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 477974002640 Pilus assembly protein, PilO; Region: PilO; cl01234 477974002641 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 477974002642 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 477974002643 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 477974002644 Walker A motif; other site 477974002645 ATP binding site [chemical binding]; other site 477974002646 Walker B motif; other site 477974002647 Transposase [DNA replication, recombination, and repair]; Region: COG5421 477974002648 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 477974002649 Secretin and TonB N terminus short domain; Region: STN; cl06624 477974002650 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 477974002651 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 477974002652 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 477974002653 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 477974002654 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 477974002655 Walker A motif; other site 477974002656 ATP binding site [chemical binding]; other site 477974002657 Walker B motif; other site 477974002658 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 477974002659 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 477974002660 Walker A motif; other site 477974002661 ATP binding site [chemical binding]; other site 477974002662 Walker B motif; other site 477974002663 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 477974002664 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 477974002665 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 477974002666 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 477974002667 Type II transport protein GspH; Region: GspH; pfam12019 477974002668 general secretion pathway protein I; Region: gspI; TIGR01707 477974002669 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 477974002670 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 477974002671 Cell division protein FtsA; Region: FtsA; cl11496 477974002672 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 477974002673 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974002674 GAF domain; Region: GAF; cl15785 477974002675 GAF domain; Region: GAF_2; pfam13185 477974002676 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974002677 Zn2+ binding site [ion binding]; other site 477974002678 Mg2+ binding site [ion binding]; other site 477974002679 Protein of unknown function (DUF342); Region: DUF342; pfam03961 477974002680 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974002681 sporulation sigma factor SigK; Reviewed; Region: PRK05803 477974002682 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974002683 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 477974002684 DNA binding residues [nucleotide binding] 477974002685 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 477974002686 oligomeric interface; other site 477974002687 putative active site [active] 477974002688 homodimer interface [polypeptide binding]; other site 477974002689 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 477974002690 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 477974002691 GTP binding site; other site 477974002692 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 477974002693 Walker A motif; other site 477974002694 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 477974002695 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 477974002696 active site 477974002697 motif I; other site 477974002698 motif II; other site 477974002699 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 477974002700 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 477974002701 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 477974002702 shikimate binding site; other site 477974002703 NAD(P) binding site [chemical binding]; other site 477974002704 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 477974002705 Tetramer interface [polypeptide binding]; other site 477974002706 active site 477974002707 FMN-binding site [chemical binding]; other site 477974002708 shikimate kinase; Provisional; Region: PRK13947 477974002709 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 477974002710 ADP binding site [chemical binding]; other site 477974002711 magnesium binding site [ion binding]; other site 477974002712 putative shikimate binding site; other site 477974002713 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 477974002714 active site 477974002715 dimer interface [polypeptide binding]; other site 477974002716 metal binding site [ion binding]; metal-binding site 477974002717 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 477974002718 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 477974002719 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 477974002720 Walker A motif; other site 477974002721 ATP binding site [chemical binding]; other site 477974002722 Walker B motif; other site 477974002723 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 477974002724 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 477974002725 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 477974002726 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 477974002727 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 477974002728 Type II transport protein GspH; Region: GspH; pfam12019 477974002729 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 477974002730 Cell division protein FtsA; Region: FtsA; cl11496 477974002731 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 477974002732 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 477974002733 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 477974002734 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 477974002735 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 477974002736 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 477974002737 trimer interface [polypeptide binding]; other site 477974002738 active site 477974002739 dimer interface [polypeptide binding]; other site 477974002740 aminopeptidase; Provisional; Region: PRK09795 477974002741 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 477974002742 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 477974002743 active site 477974002744 elongation factor P; Validated; Region: PRK00529 477974002745 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 477974002746 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 477974002747 RNA binding site [nucleotide binding]; other site 477974002748 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 477974002749 RNA binding site [nucleotide binding]; other site 477974002750 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 477974002751 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974002752 Walker A motif; other site 477974002753 ATP binding site [chemical binding]; other site 477974002754 Walker B motif; other site 477974002755 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 477974002756 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 477974002757 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 477974002758 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 477974002759 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 477974002760 stage III sporulation protein AF; Region: spore_III_AF; TIGR02896 477974002761 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 477974002762 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 477974002763 pyruvate carboxylase subunit B; Validated; Region: PRK09282 477974002764 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 477974002765 active site 477974002766 catalytic residues [active] 477974002767 metal binding site [ion binding]; metal-binding site 477974002768 homodimer binding site [polypeptide binding]; other site 477974002769 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 477974002770 carboxyltransferase (CT) interaction site; other site 477974002771 biotinylation site [posttranslational modification]; other site 477974002772 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 477974002773 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 477974002774 ATP-grasp domain; Region: ATP-grasp_4; cl03087 477974002775 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 477974002776 Asp23 family; Region: Asp23; cl00574 477974002777 Asp23 family; Region: Asp23; cl00574 477974002778 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 477974002779 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 477974002780 putative RNA binding site [nucleotide binding]; other site 477974002781 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 477974002782 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 477974002783 generic binding surface II; other site 477974002784 generic binding surface I; other site 477974002785 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 477974002786 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 477974002787 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 477974002788 homodimer interface [polypeptide binding]; other site 477974002789 NADP binding site [chemical binding]; other site 477974002790 substrate binding site [chemical binding]; other site 477974002791 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 477974002792 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 477974002793 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 477974002794 substrate binding pocket [chemical binding]; other site 477974002795 chain length determination region; other site 477974002796 substrate-Mg2+ binding site; other site 477974002797 catalytic residues [active] 477974002798 aspartate-rich region 1; other site 477974002799 active site lid residues [active] 477974002800 aspartate-rich region 2; other site 477974002801 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 477974002802 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 477974002803 TPP-binding site; other site 477974002804 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 477974002805 PYR/PP interface [polypeptide binding]; other site 477974002806 dimer interface [polypeptide binding]; other site 477974002807 TPP binding site [chemical binding]; other site 477974002808 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 477974002809 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 477974002810 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 477974002811 RNA binding surface [nucleotide binding]; other site 477974002812 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; cl15754 477974002813 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 477974002814 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 477974002815 arginine repressor; Region: argR_whole; TIGR01529 477974002816 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 477974002817 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 477974002818 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 477974002819 Walker A/P-loop; other site 477974002820 ATP binding site [chemical binding]; other site 477974002821 Q-loop/lid; other site 477974002822 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 477974002823 ABC transporter signature motif; other site 477974002824 Walker B; other site 477974002825 D-loop; other site 477974002826 H-loop/switch region; other site 477974002827 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 477974002828 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 477974002829 Amidase; Region: Amidase; cl11426 477974002830 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 477974002831 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 477974002832 GatB domain; Region: GatB_Yqey; cl11497 477974002833 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 477974002834 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 477974002835 active site 477974002836 catalytic residues [active] 477974002837 metal binding site [ion binding]; metal-binding site 477974002838 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 477974002839 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 477974002840 substrate binding site [chemical binding]; other site 477974002841 ligand binding site [chemical binding]; other site 477974002842 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 477974002843 substrate binding site [chemical binding]; other site 477974002844 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 477974002845 isocitrate dehydrogenase; Validated; Region: PRK06451 477974002846 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974002847 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 477974002848 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 477974002849 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 477974002850 active site 477974002851 Substrate binding site; other site 477974002852 Mg++ binding site; other site 477974002853 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 477974002854 putative trimer interface [polypeptide binding]; other site 477974002855 putative CoA binding site [chemical binding]; other site 477974002856 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 477974002857 GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an...; Region: MPG1_transferase; cd05805 477974002858 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 477974002859 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 477974002860 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 477974002861 Polysulphide reductase, NrfD; Region: NrfD; cl01295 477974002862 Uncharacterized conserved protein [Function unknown]; Region: COG1543 477974002863 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 477974002864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 477974002865 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 477974002866 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 477974002867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974002868 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 477974002869 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 477974002870 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 477974002871 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 477974002872 generic binding surface I; other site 477974002873 generic binding surface II; other site 477974002874 Tryptophan RNA-binding attenuator protein; Region: TrpBP; cl03437 477974002875 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 477974002876 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 477974002877 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 477974002878 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 477974002879 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 477974002880 active site 477974002881 ADP/pyrophosphate binding site [chemical binding]; other site 477974002882 dimerization interface [polypeptide binding]; other site 477974002883 allosteric effector site; other site 477974002884 fructose-1,6-bisphosphate binding site; other site 477974002885 pyruvate kinase; Provisional; Region: PRK06354 477974002886 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; cl09155 477974002887 domain interfaces; other site 477974002888 active site 477974002889 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 477974002890 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 477974002891 Sulfatase; Region: Sulfatase; cl10460 477974002892 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 477974002893 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 477974002894 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 477974002895 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 477974002896 NifU-like domain; Region: NifU; cl00484 477974002897 phosphodiesterase; Provisional; Region: PRK12704 477974002898 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974002899 Zn2+ binding site [ion binding]; other site 477974002900 Mg2+ binding site [ion binding]; other site 477974002901 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 477974002902 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 477974002903 putative active site [active] 477974002904 metal binding site [ion binding]; metal-binding site 477974002905 homodimer binding site [polypeptide binding]; other site 477974002906 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 477974002907 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 477974002908 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 477974002909 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 477974002910 catalytic core [active] 477974002911 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 477974002912 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 477974002913 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 477974002914 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 477974002915 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; cl09108 477974002916 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 key...; Region: CBS_pair_IMPDH; cd04601 477974002917 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 the guanine...; Region: IMPDH; cd00381 477974002918 active site 477974002919 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 477974002920 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 477974002921 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 477974002922 FeS/SAM binding site; other site 477974002923 homoserine dehydrogenase; Provisional; Region: PRK06349 477974002924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974002925 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 477974002926 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 477974002927 homoserine kinase; Provisional; Region: PRK01212 477974002928 aspartate kinase; Reviewed; Region: PRK06635 477974002929 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 477974002930 putative catalytic residues [active] 477974002931 putative nucleotide binding site [chemical binding]; other site 477974002932 putative aspartate binding site [chemical binding]; other site 477974002933 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 477974002934 putative allosteric regulatory site; other site 477974002935 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 477974002936 putative allosteric regulatory residue; other site 477974002937 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 477974002938 ATP-sulfurylase; Region: ATPS; cd00517 477974002939 active site 477974002940 HXXH motif; other site 477974002941 flexible loop; other site 477974002942 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 477974002943 dimerization interface [polypeptide binding]; other site 477974002944 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 477974002945 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 477974002946 dimer interface [polypeptide binding]; other site 477974002947 putative CheW interface [polypeptide binding]; other site 477974002948 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 477974002949 ATP-sulfurylase; Region: ATPS; cd00517 477974002950 active site 477974002951 HXXH motif; other site 477974002952 flexible loop; other site 477974002953 4Fe-4S binding domain; Region: Fer4; cl02805 477974002954 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 477974002955 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 477974002956 putative active site [active] 477974002957 putative metal binding site [ion binding]; other site 477974002958 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 477974002959 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 477974002960 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 477974002961 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 477974002962 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 477974002963 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 477974002964 substrate binding pocket [chemical binding]; other site 477974002965 substrate-Mg2+ binding site; other site 477974002966 aspartate-rich region 1; other site 477974002967 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 477974002968 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 477974002969 S-adenosylmethionine binding site [chemical binding]; other site 477974002970 UbiA prenyltransferase family; Region: UbiA; cl00337 477974002971 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 477974002972 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 477974002973 FeS/SAM binding site; other site 477974002974 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 477974002975 NMT1-like family; Region: NMT1_2; cl15260 477974002976 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 477974002977 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 477974002978 FeS/SAM binding site; other site 477974002979 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 477974002980 selenocysteine synthase; Provisional; Region: PRK04311 477974002981 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 477974002982 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 477974002983 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 477974002984 catalytic residue [active] 477974002985 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 477974002986 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 477974002987 G1 box; other site 477974002988 putative GEF interaction site [polypeptide binding]; other site 477974002989 GTP/Mg2+ binding site [chemical binding]; other site 477974002990 Switch I region; other site 477974002991 G2 box; other site 477974002992 G3 box; other site 477974002993 Switch II region; other site 477974002994 G4 box; other site 477974002995 G5 box; other site 477974002996 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 477974002997 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 477974002998 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 477974002999 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 477974003000 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 477974003001 putative peptidoglycan binding site; other site 477974003002 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 477974003003 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 477974003004 putative peptidoglycan binding site; other site 477974003005 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 477974003006 putative peptidoglycan binding site; other site 477974003007 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 477974003008 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 477974003009 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 477974003010 NADH dehydrogenase; Region: NADHdh; cl00469 477974003011 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 477974003012 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 477974003013 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 477974003014 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 477974003015 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 477974003016 4Fe-4S binding domain; Region: Fer4; cl02805 477974003017 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 477974003018 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 477974003019 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974003020 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 477974003021 putative ADP-binding pocket [chemical binding]; other site 477974003022 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 477974003023 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 477974003024 DAK2 domain; Region: Dak2; cl03685 477974003025 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 477974003026 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974003027 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 477974003028 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 477974003029 HflX GTPase family; Region: HflX; cd01878 477974003030 G1 box; other site 477974003031 GTP/Mg2+ binding site [chemical binding]; other site 477974003032 Switch I region; other site 477974003033 G2 box; other site 477974003034 G3 box; other site 477974003035 Switch II region; other site 477974003036 G4 box; other site 477974003037 G5 box; other site 477974003038 adenylate kinase; Reviewed; Region: adk; PRK00279 477974003039 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 477974003040 AMP-binding site [chemical binding]; other site 477974003041 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 477974003042 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 477974003043 Late competence development protein ComFB; Region: ComFB; pfam10719 477974003044 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 477974003045 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 477974003046 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 477974003047 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 477974003048 dimerization interface [polypeptide binding]; other site 477974003049 allosteric effector site; other site 477974003050 active site 477974003051 ADP/pyrophosphate binding site [chemical binding]; other site 477974003052 fructose-1,6-bisphosphate binding site; other site 477974003053 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 477974003054 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 477974003055 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 477974003056 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 477974003057 malate dehydrogenase; Reviewed; Region: PRK06223 477974003058 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 477974003059 NAD(P) binding site [chemical binding]; other site 477974003060 dimer interface [polypeptide binding]; other site 477974003061 tetramer (dimer of dimers) interface [polypeptide binding]; other site 477974003062 substrate binding site [chemical binding]; other site 477974003063 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 477974003064 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 477974003065 putative dimer interface [polypeptide binding]; other site 477974003066 ABC-2 type transporter; Region: ABC2_membrane; cl11417 477974003067 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974003068 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 477974003069 Walker A/P-loop; other site 477974003070 ATP binding site [chemical binding]; other site 477974003071 Q-loop/lid; other site 477974003072 ABC transporter signature motif; other site 477974003073 Walker B; other site 477974003074 D-loop; other site 477974003075 H-loop/switch region; other site 477974003076 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 477974003077 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 477974003078 Walker A/P-loop; other site 477974003079 ATP binding site [chemical binding]; other site 477974003080 Q-loop/lid; other site 477974003081 ABC transporter signature motif; other site 477974003082 Walker B; other site 477974003083 D-loop; other site 477974003084 H-loop/switch region; other site 477974003085 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 477974003086 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 477974003087 Walker A/P-loop; other site 477974003088 ATP binding site [chemical binding]; other site 477974003089 Q-loop/lid; other site 477974003090 ABC transporter signature motif; other site 477974003091 Walker B; other site 477974003092 D-loop; other site 477974003093 H-loop/switch region; other site 477974003094 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 477974003095 TM-ABC transporter signature motif; other site 477974003096 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 477974003097 TM-ABC transporter signature motif; other site 477974003098 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 477974003099 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 477974003100 EamA-like transporter family; Region: EamA; cl01037 477974003101 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 477974003102 EamA-like transporter family; Region: EamA; cl01037 477974003103 EamA-like transporter family; Region: EamA; cl01037 477974003104 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 477974003105 EamA-like transporter family; Region: EamA; cl01037 477974003106 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 477974003107 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 477974003108 substrate binding pocket [chemical binding]; other site 477974003109 membrane-bound complex binding site; other site 477974003110 hinge residues; other site 477974003111 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 477974003112 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 477974003113 dimer interface [polypeptide binding]; other site 477974003114 conserved gate region; other site 477974003115 putative PBP binding loops; other site 477974003116 ABC-ATPase subunit interface; other site 477974003117 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 477974003118 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 477974003119 Walker A/P-loop; other site 477974003120 ATP binding site [chemical binding]; other site 477974003121 Q-loop/lid; other site 477974003122 ABC transporter signature motif; other site 477974003123 Walker B; other site 477974003124 D-loop; other site 477974003125 H-loop/switch region; other site 477974003126 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 477974003127 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 477974003128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974003129 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 477974003130 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; cl09108 477974003131 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; cl09108 477974003132 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 477974003133 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 477974003134 Coenzyme A binding pocket [chemical binding]; other site 477974003135 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 477974003136 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a...; Region: EPT_RTPC-like; cl00288 477974003137 putative active site [active] 477974003138 Beta propeller domain; Region: Beta_propel; pfam09826 477974003139 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 477974003140 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 477974003141 Walker A/P-loop; other site 477974003142 ATP binding site [chemical binding]; other site 477974003143 Q-loop/lid; other site 477974003144 ABC transporter signature motif; other site 477974003145 Walker B; other site 477974003146 D-loop; other site 477974003147 H-loop/switch region; other site 477974003148 FtsX-like permease family; Region: FtsX; cl15850 477974003149 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 477974003150 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 477974003151 Methyltransferase domain; Region: Methyltransf_31; pfam13847 477974003152 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 477974003153 S-adenosylmethionine binding site [chemical binding]; other site 477974003154 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 477974003155 putative PBP binding regions; other site 477974003156 ABC-ATPase subunit interface; other site 477974003157 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 477974003158 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 477974003159 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 477974003160 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 477974003161 intersubunit interface [polypeptide binding]; other site 477974003162 Protein of unknown function (DUF502); Region: DUF502; cl01107 477974003163 hypothetical protein; Provisional; Region: PRK08609 477974003164 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 477974003165 active site 477974003166 primer binding site [nucleotide binding]; other site 477974003167 NTP binding site [chemical binding]; other site 477974003168 metal binding triad [ion binding]; metal-binding site 477974003169 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 477974003170 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 477974003171 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 477974003172 FeS/SAM binding site; other site 477974003173 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 477974003174 Acylphosphatase; Region: Acylphosphatase; cl00551 477974003175 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 477974003176 Ligand Binding Site [chemical binding]; other site 477974003177 TIGR00269 family protein; Region: TIGR00269 477974003178 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 477974003179 ADP-ribose binding site [chemical binding]; other site 477974003180 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 477974003181 amino acid transporter; Region: 2A0306; TIGR00909 477974003182 Spore germination protein; Region: Spore_permease; cl15802 477974003183 Spore germination protein; Region: Spore_permease; cl15802 477974003184 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 477974003185 Rhomboid family; Region: Rhomboid; cl11446 477974003186 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 477974003187 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 477974003188 active site 477974003189 metal binding site [ion binding]; metal-binding site 477974003190 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 477974003191 FMN binding site [chemical binding]; other site 477974003192 dimer interface [polypeptide binding]; other site 477974003193 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 477974003194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974003195 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 477974003196 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 477974003197 putative active site [active] 477974003198 catalytic triad [active] 477974003199 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 477974003200 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 477974003201 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 477974003202 dimerization interface [polypeptide binding]; other site 477974003203 ATP binding site [chemical binding]; other site 477974003204 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 477974003205 dimerization interface [polypeptide binding]; other site 477974003206 ATP binding site [chemical binding]; other site 477974003207 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 477974003208 GTP-binding protein Der; Reviewed; Region: PRK00093 477974003209 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 477974003210 G1 box; other site 477974003211 GTP/Mg2+ binding site [chemical binding]; other site 477974003212 Switch I region; other site 477974003213 G2 box; other site 477974003214 Switch II region; other site 477974003215 G3 box; other site 477974003216 G4 box; other site 477974003217 G5 box; other site 477974003218 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 477974003219 G1 box; other site 477974003220 GTP/Mg2+ binding site [chemical binding]; other site 477974003221 Switch I region; other site 477974003222 G2 box; other site 477974003223 G3 box; other site 477974003224 Switch II region; other site 477974003225 G4 box; other site 477974003226 G5 box; other site 477974003227 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 477974003228 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 477974003229 Protein of unknown function (DUF512); Region: DUF512; pfam04459 477974003230 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 477974003231 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 477974003232 stage II sporulation protein P; Region: spore_II_P; TIGR02867 477974003233 Protein of unknown function (DUF1614); Region: DUF1614; cl15407 477974003234 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 477974003235 LytB protein; Region: LYTB; cl00507 477974003236 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 477974003237 RNA binding site [nucleotide binding]; other site 477974003238 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 477974003239 RNA binding site [nucleotide binding]; other site 477974003240 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 477974003241 RNA binding site [nucleotide binding]; other site 477974003242 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 477974003243 RNA binding site [nucleotide binding]; other site 477974003244 domain interface; other site 477974003245 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 477974003246 putative acyl-acceptor binding pocket; other site 477974003247 cytidylate kinase; Provisional; Region: cmk; PRK00023 477974003248 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 477974003249 CMP-binding site; other site 477974003250 The sites determining sugar specificity; other site 477974003251 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 477974003252 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 477974003253 hinge; other site 477974003254 active site 477974003255 prephenate dehydrogenase; Validated; Region: PRK06545 477974003256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974003257 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 477974003258 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 477974003259 NeuB family; Region: NeuB; cl00496 477974003260 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 477974003261 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 477974003262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974003263 homodimer interface [polypeptide binding]; other site 477974003264 catalytic residue [active] 477974003265 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 477974003266 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 477974003267 substrate binding site [chemical binding]; other site 477974003268 active site 477974003269 catalytic residues [active] 477974003270 heterodimer interface [polypeptide binding]; other site 477974003271 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 477974003272 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 477974003273 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974003274 catalytic residue [active] 477974003275 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 monomeric; Region: PRAI; cd00405 477974003276 active site 477974003277 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 477974003278 active site 477974003279 ribulose/triose binding site [chemical binding]; other site 477974003280 phosphate binding site [ion binding]; other site 477974003281 substrate (anthranilate) binding pocket [chemical binding]; other site 477974003282 product (indole) binding pocket [chemical binding]; other site 477974003283 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 477974003284 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 477974003285 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 477974003286 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 477974003287 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 477974003288 glutamine binding [chemical binding]; other site 477974003289 catalytic triad [active] 477974003290 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 477974003291 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 477974003292 chorismate binding enzyme; Region: Chorismate_bind; cl10555 477974003293 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 477974003294 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974003295 Zn2+ binding site [ion binding]; other site 477974003296 Mg2+ binding site [ion binding]; other site 477974003297 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 477974003298 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 477974003299 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974003300 Zn2+ binding site [ion binding]; other site 477974003301 Mg2+ binding site [ion binding]; other site 477974003302 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 477974003303 homotrimer interaction site [polypeptide binding]; other site 477974003304 active site 477974003305 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 477974003306 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 477974003307 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 477974003308 active site 477974003309 Nucleoside recognition; Region: Gate; cl00486 477974003310 Nucleoside recognition; Region: Gate; cl00486 477974003311 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 477974003312 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 477974003313 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 477974003314 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 477974003315 active site 477974003316 HIGH motif; other site 477974003317 dimer interface [polypeptide binding]; other site 477974003318 KMSKS motif; other site 477974003319 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 477974003320 active site 477974003321 putative substrate binding region [chemical binding]; other site 477974003322 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 477974003323 DHH family; Region: DHH; pfam01368 477974003324 FOG: CBS domain [General function prediction only]; Region: COG0517 477974003325 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 477974003326 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 477974003327 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 477974003328 active site 477974003329 NTP binding site [chemical binding]; other site 477974003330 metal binding triad [ion binding]; metal-binding site 477974003331 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 477974003332 diaminopimelate decarboxylase; Region: lysA; TIGR01048 477974003333 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 477974003334 active site 477974003335 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 477974003336 substrate binding site [chemical binding]; other site 477974003337 catalytic residues [active] 477974003338 dimer interface [polypeptide binding]; other site 477974003339 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 477974003340 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 477974003341 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974003342 catalytic residue [active] 477974003343 ABC-2 type transporter; Region: ABC2_membrane; cl11417 477974003344 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 477974003345 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974003346 Walker A/P-loop; other site 477974003347 ATP binding site [chemical binding]; other site 477974003348 Q-loop/lid; other site 477974003349 ABC transporter signature motif; other site 477974003350 Walker B; other site 477974003351 D-loop; other site 477974003352 H-loop/switch region; other site 477974003353 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 477974003354 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974003355 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 477974003356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974003357 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 477974003358 metal ion-dependent adhesion site (MIDAS); other site 477974003359 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 477974003360 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 477974003361 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 477974003362 ABC-2 type transporter; Region: ABC2_membrane; cl11417 477974003363 ABC-2 type transporter; Region: ABC2_membrane; cl11417 477974003364 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 477974003365 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974003366 Walker A/P-loop; other site 477974003367 ATP binding site [chemical binding]; other site 477974003368 Q-loop/lid; other site 477974003369 ABC transporter signature motif; other site 477974003370 Walker B; other site 477974003371 D-loop; other site 477974003372 H-loop/switch region; other site 477974003373 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 477974003374 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 477974003375 Walker A/P-loop; other site 477974003376 ATP binding site [chemical binding]; other site 477974003377 Q-loop/lid; other site 477974003378 ABC transporter signature motif; other site 477974003379 Walker B; other site 477974003380 D-loop; other site 477974003381 H-loop/switch region; other site 477974003382 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974003383 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974003384 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 477974003385 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 477974003386 intersubunit interface [polypeptide binding]; other site 477974003387 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 477974003388 ABC-ATPase subunit interface; other site 477974003389 dimer interface [polypeptide binding]; other site 477974003390 putative PBP binding regions; other site 477974003391 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 477974003392 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 477974003393 intersubunit interface [polypeptide binding]; other site 477974003394 Domain of unknown function (DUF3479); Region: DUF3479; pfam11965 477974003395 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 477974003396 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 477974003397 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 477974003398 SpoVA protein; Region: SpoVA; cl04298 477974003399 stage V sporulation protein AD; Validated; Region: PRK08304 477974003400 stage V sporulation protein AD; Provisional; Region: PRK12404 477974003401 SpoVA protein; Region: SpoVA; cl04298 477974003402 Dodecin; Region: Dodecin; cl01328 477974003403 sporulation sigma factor SigF; Validated; Region: PRK05572 477974003404 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974003405 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 477974003406 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 477974003407 DNA binding residues [nucleotide binding] 477974003408 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 477974003409 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 477974003410 ATP binding site [chemical binding]; other site 477974003411 Mg2+ binding site [ion binding]; other site 477974003412 G-X-G motif; other site 477974003413 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 477974003414 anti sigma factor interaction site; other site 477974003415 regulatory phosphorylation site [posttranslational modification]; other site 477974003416 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 477974003417 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 477974003418 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 477974003419 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 477974003420 elongation factor G; Reviewed; Region: PRK12740 477974003421 G1 box; other site 477974003422 putative GEF interaction site [polypeptide binding]; other site 477974003423 GTP/Mg2+ binding site [chemical binding]; other site 477974003424 Switch I region; other site 477974003425 G2 box; other site 477974003426 G3 box; other site 477974003427 Switch II region; other site 477974003428 G4 box; other site 477974003429 G5 box; other site 477974003430 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 477974003431 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 477974003432 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 477974003433 MatE; Region: MatE; cl10513 477974003434 stage V sporulation protein B; Region: spore_V_B; TIGR02900 477974003435 MatE; Region: MatE; cl10513 477974003436 Survival protein SurE; Region: SurE; cl00448 477974003437 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 477974003438 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 477974003439 homodecamer interface [polypeptide binding]; other site 477974003440 GTP cyclohydrolase I; Provisional; Region: PLN03044 477974003441 active site 477974003442 putative catalytic site residues [active] 477974003443 zinc binding site [ion binding]; other site 477974003444 GTP-CH-I/GFRP interaction surface; other site 477974003445 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 477974003446 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 477974003447 FeS/SAM binding site; other site 477974003448 Domain of unknown function (DUF366); Region: DUF366; cl00890 477974003449 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 477974003450 Ligand Binding Site [chemical binding]; other site 477974003451 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 477974003452 active site 477974003453 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 477974003454 binding surface 477974003455 TPR motif; other site 477974003456 TPR repeat; Region: TPR_11; pfam13414 477974003457 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 477974003458 binding surface 477974003459 TPR motif; other site 477974003460 TPR repeat; Region: TPR_11; pfam13414 477974003461 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 477974003462 binding surface 477974003463 TPR motif; other site 477974003464 TPR repeat; Region: TPR_11; pfam13414 477974003465 TPR repeat; Region: TPR_11; pfam13414 477974003466 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 477974003467 binding surface 477974003468 TPR motif; other site 477974003469 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 477974003470 intersubunit interface [polypeptide binding]; other site 477974003471 active site 477974003472 catalytic residue [active] 477974003473 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 477974003474 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 477974003475 ATP-grasp domain; Region: ATP-grasp_4; cl03087 477974003476 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 477974003477 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 477974003478 active site 477974003479 metal binding site [ion binding]; metal-binding site 477974003480 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 477974003481 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 477974003482 minor groove reading motif; other site 477974003483 helix-hairpin-helix signature motif; other site 477974003484 substrate binding pocket [chemical binding]; other site 477974003485 active site 477974003486 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 477974003487 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 477974003488 catalytic residues [active] 477974003489 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974003490 Transposase domain (DUF772); Region: DUF772; cl15789 477974003491 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974003492 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 477974003493 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 477974003494 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 477974003495 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 477974003496 Cysteine-rich domain; Region: CCG; pfam02754 477974003497 Cysteine-rich domain; Region: CCG; pfam02754 477974003498 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 477974003499 Fumarase C-terminus; Region: Fumerase_C; cl00795 477974003500 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 477974003501 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 477974003502 DctM-like transporters; Region: DctM; pfam06808 477974003503 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 477974003504 NMT1-like family; Region: NMT1_2; cl15260 477974003505 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 477974003506 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 477974003507 active site 477974003508 phosphorylation site [posttranslational modification] 477974003509 intermolecular recognition site; other site 477974003510 dimerization interface [polypeptide binding]; other site 477974003511 Helix-turn-helix domains; Region: HTH; cl00088 477974003512 Leucine rich repeat variant; Region: LRV; pfam01816 477974003513 MoxR-like ATPases [General function prediction only]; Region: COG0714 477974003514 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 477974003515 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 477974003516 YdjC-like protein; Region: YdjC; cl01344 477974003517 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 477974003518 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 477974003519 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 477974003520 PhoU domain; Region: PhoU; pfam01895 477974003521 PhoU domain; Region: PhoU; pfam01895 477974003522 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 477974003523 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 477974003524 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 477974003525 G1 box; other site 477974003526 GTP/Mg2+ binding site [chemical binding]; other site 477974003527 Switch I region; other site 477974003528 G2 box; other site 477974003529 G3 box; other site 477974003530 Switch II region; other site 477974003531 G4 box; other site 477974003532 G5 box; other site 477974003533 Nucleoside recognition; Region: Gate; cl00486 477974003534 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 477974003535 Nucleoside recognition; Region: Gate; cl00486 477974003536 FeoA domain; Region: FeoA; cl00838 477974003537 Stage II sporulation protein; Region: SpoIID; pfam08486 477974003538 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 477974003539 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 477974003540 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 477974003541 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 477974003542 protein-splicing catalytic site; other site 477974003543 thioester formation/cholesterol transfer; other site 477974003544 DNA endonuclease related to intein-encoded endonucleases [DNA replication, recombination, and repair]; Region: COG3780 477974003545 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 477974003546 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 477974003547 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 477974003548 TSCPD domain; Region: TSCPD; cl14834 477974003549 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 477974003550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974003551 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 477974003552 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 477974003553 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974003554 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 477974003555 DNA binding residues [nucleotide binding] 477974003556 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 477974003557 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 477974003558 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 477974003559 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974003560 Family description; Region: UvrD_C_2; cl15862 477974003561 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 477974003562 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 477974003563 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 477974003564 active site 477974003565 metal binding site [ion binding]; metal-binding site 477974003566 DNA binding site [nucleotide binding] 477974003567 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974003568 Walker A/P-loop; other site 477974003569 ATP binding site [chemical binding]; other site 477974003570 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974003571 Walker B; other site 477974003572 D-loop; other site 477974003573 H-loop/switch region; other site 477974003574 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 477974003575 tartrate dehydrogenase; Provisional; Region: PRK08194 477974003576 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 477974003577 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 477974003578 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 477974003579 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 477974003580 Sulfatase; Region: Sulfatase; cl10460 477974003581 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 477974003582 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 477974003583 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 477974003584 active site 477974003585 Int/Topo IB signature motif; other site 477974003586 Integral membrane protein DUF95; Region: DUF95; cl00572 477974003587 Protein of unknown function (DUF3866); Region: DUF3866; pfam12982 477974003588 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 477974003589 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 477974003590 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 477974003591 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 477974003592 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 477974003593 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 477974003594 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974003595 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cd09693 477974003596 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 477974003597 Predicted transcriptional regulator [Transcription]; Region: COG2378 477974003598 WYL domain; Region: WYL; cl14852 477974003599 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 477974003600 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 477974003601 Domain of unknown function (DUF814); Region: DUF814; pfam05670 477974003602 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 477974003603 A new structural DNA glycosylase; Region: AlkD_like; cd06561 477974003604 active site 477974003605 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 contains two...; Region: OMP_decarboxylase_like; cd04725 477974003606 active site 477974003607 dimer interface [polypeptide binding]; other site 477974003608 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 477974003609 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 477974003610 heterodimer interface [polypeptide binding]; other site 477974003611 active site 477974003612 FMN binding site [chemical binding]; other site 477974003613 homodimer interface [polypeptide binding]; other site 477974003614 substrate binding site [chemical binding]; other site 477974003615 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 477974003616 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 477974003617 FAD binding pocket [chemical binding]; other site 477974003618 FAD binding motif [chemical binding]; other site 477974003619 phosphate binding motif [ion binding]; other site 477974003620 beta-alpha-beta structure motif; other site 477974003621 NAD binding pocket [chemical binding]; other site 477974003622 Iron coordination center [ion binding]; other site 477974003623 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 477974003624 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 477974003625 ATP-grasp domain; Region: ATP-grasp_4; cl03087 477974003626 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 477974003627 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 477974003628 ATP-grasp domain; Region: ATP-grasp_4; cl03087 477974003629 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 477974003630 IMP binding site; other site 477974003631 dimer interface [polypeptide binding]; other site 477974003632 interdomain contacts; other site 477974003633 partial ornithine binding site; other site 477974003634 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 477974003635 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 477974003636 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 477974003637 catalytic site [active] 477974003638 subunit interface [polypeptide binding]; other site 477974003639 dihydroorotase; Validated; Region: pyrC; PRK09357 477974003640 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 477974003641 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 477974003642 active site 477974003643 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 477974003644 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 477974003645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974003646 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 477974003647 active site 477974003648 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 477974003649 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 477974003650 Major Facilitator Superfamily; Region: MFS_1; pfam07690 477974003651 putative substrate translocation pore; other site 477974003652 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 477974003653 Protein of unknown function (DUF441); Region: DUF441; cl01041 477974003654 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 477974003655 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 477974003656 dimer interface [polypeptide binding]; other site 477974003657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974003658 catalytic residue [active] 477974003659 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 477974003660 homotrimer interface [polypeptide binding]; other site 477974003661 Walker A motif; other site 477974003662 GTP binding site [chemical binding]; other site 477974003663 Walker B motif; other site 477974003664 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 477974003665 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 477974003666 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 477974003667 putative dimer interface [polypeptide binding]; other site 477974003668 active site pocket [active] 477974003669 putative cataytic base [active] 477974003670 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 477974003671 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 477974003672 Walker A/P-loop; other site 477974003673 ATP binding site [chemical binding]; other site 477974003674 Q-loop/lid; other site 477974003675 ABC transporter signature motif; other site 477974003676 Walker B; other site 477974003677 D-loop; other site 477974003678 H-loop/switch region; other site 477974003679 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 477974003680 ABC-ATPase subunit interface; other site 477974003681 dimer interface [polypeptide binding]; other site 477974003682 putative PBP binding regions; other site 477974003683 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 477974003684 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 477974003685 cobalamin binding residues [chemical binding]; other site 477974003686 putative BtuC binding residues; other site 477974003687 dimer interface [polypeptide binding]; other site 477974003688 AAA domain; Region: AAA_28; pfam13521 477974003689 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974003690 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 477974003691 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 477974003692 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 477974003693 active site 477974003694 glycogen synthase; Provisional; Region: glgA; PRK00654 477974003695 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 477974003696 ADP-binding pocket [chemical binding]; other site 477974003697 homodimer interface [polypeptide binding]; other site 477974003698 ADP-glucose phosphorylase; Region: PLN02643 477974003699 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 477974003700 nucleotide binding site/active site [active] 477974003701 HIT family signature motif; other site 477974003702 catalytic residue [active] 477974003703 septum formation inhibitor; Reviewed; Region: minC; PRK00513 477974003704 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 477974003705 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 477974003706 dimer interface [polypeptide binding]; other site 477974003707 active site 477974003708 ADP-ribose binding site [chemical binding]; other site 477974003709 nudix motif; other site 477974003710 metal binding site [ion binding]; metal-binding site 477974003711 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 477974003712 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 477974003713 substrate-cofactor binding pocket; other site 477974003714 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974003715 catalytic residue [active] 477974003716 AAA domain; Region: AAA_26; pfam13500 477974003717 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974003718 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974003719 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 477974003720 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 477974003721 inhibitor-cofactor binding pocket; inhibition site 477974003722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974003723 catalytic residue [active] 477974003724 Esterase/lipase [General function prediction only]; Region: COG1647 477974003725 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 477974003726 S-adenosylmethionine binding site [chemical binding]; other site 477974003727 biotin synthase; Region: bioB; TIGR00433 477974003728 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 477974003729 FeS/SAM binding site; other site 477974003730 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 477974003731 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 477974003732 putative dimer interface [polypeptide binding]; other site 477974003733 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 477974003734 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 477974003735 catalytic loop [active] 477974003736 iron binding site [ion binding]; other site 477974003737 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 477974003738 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 477974003739 4Fe-4S binding domain; Region: Fer4; cl02805 477974003740 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 477974003741 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 477974003742 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 477974003743 dimer interface [polypeptide binding]; other site 477974003744 [2Fe-2S] cluster binding site [ion binding]; other site 477974003745 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 477974003746 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 477974003747 SLBB domain; Region: SLBB; pfam10531 477974003748 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 477974003749 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 477974003750 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 477974003751 putative dimer interface [polypeptide binding]; other site 477974003752 [2Fe-2S] cluster binding site [ion binding]; other site 477974003753 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 477974003754 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 477974003755 inhibitor-cofactor binding pocket; inhibition site 477974003756 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974003757 catalytic residue [active] 477974003758 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 477974003759 Helix-turn-helix domains; Region: HTH; cl00088 477974003760 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 477974003761 Helix-turn-helix domains; Region: HTH; cl00088 477974003762 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 477974003763 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 477974003764 FeS/SAM binding site; other site 477974003765 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 477974003766 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 477974003767 dimer interface [polypeptide binding]; other site 477974003768 active site 477974003769 Schiff base residues; other site 477974003770 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 477974003771 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 477974003772 FeS/SAM binding site; other site 477974003773 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 477974003774 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 477974003775 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 477974003776 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 477974003777 active site 477974003778 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 477974003779 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 477974003780 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 477974003781 domain interfaces; other site 477974003782 active site 477974003783 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 477974003784 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 477974003785 tRNA; other site 477974003786 putative tRNA binding site [nucleotide binding]; other site 477974003787 putative NADP binding site [chemical binding]; other site 477974003788 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 477974003789 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 477974003790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974003791 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 477974003792 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 477974003793 substrate binding pocket [chemical binding]; other site 477974003794 chain length determination region; other site 477974003795 substrate-Mg2+ binding site; other site 477974003796 catalytic residues [active] 477974003797 aspartate-rich region 1; other site 477974003798 active site lid residues [active] 477974003799 aspartate-rich region 2; other site 477974003800 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 477974003801 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 477974003802 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 477974003803 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 477974003804 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 477974003805 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 477974003806 Protein export membrane protein; Region: SecD_SecF; cl14618 477974003807 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 477974003808 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 477974003809 Protein export membrane protein; Region: SecD_SecF; cl14618 477974003810 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974003811 Zn2+ binding site [ion binding]; other site 477974003812 Mg2+ binding site [ion binding]; other site 477974003813 Preprotein translocase subunit; Region: YajC; cl00806 477974003814 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 477974003815 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 477974003816 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 477974003817 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 477974003818 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 477974003819 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 477974003820 Walker A motif; other site 477974003821 ATP binding site [chemical binding]; other site 477974003822 Walker B motif; other site 477974003823 arginine finger; other site 477974003824 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 477974003825 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 477974003826 RuvA N terminal domain; Region: RuvA_N; pfam01330 477974003827 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 477974003828 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 includes...; Region: RuvC_resolvase; cd00529 477974003829 active site 477974003830 putative DNA-binding cleft [nucleotide binding]; other site 477974003831 dimer interface [polypeptide binding]; other site 477974003832 NAD synthase; Region: NAD_synthase; pfam02540 477974003833 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 477974003834 homodimer interface [polypeptide binding]; other site 477974003835 NAD binding pocket [chemical binding]; other site 477974003836 ATP binding pocket [chemical binding]; other site 477974003837 Mg binding site [ion binding]; other site 477974003838 active-site loop [active] 477974003839 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 477974003840 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 477974003841 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 477974003842 active site 477974003843 HIGH motif; other site 477974003844 dimer interface [polypeptide binding]; other site 477974003845 KMSKS motif; other site 477974003846 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 477974003847 RNA binding surface [nucleotide binding]; other site 477974003848 Transglycosylase; Region: Transgly; cl07896 477974003849 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 477974003850 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 477974003851 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 477974003852 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 477974003853 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 477974003854 Walker A/P-loop; other site 477974003855 ATP binding site [chemical binding]; other site 477974003856 Q-loop/lid; other site 477974003857 ABC transporter signature motif; other site 477974003858 Walker B; other site 477974003859 D-loop; other site 477974003860 H-loop/switch region; other site 477974003861 Protein of unknown function DUF89; Region: DUF89; cl15397 477974003862 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 477974003863 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 477974003864 Walker A/P-loop; other site 477974003865 ATP binding site [chemical binding]; other site 477974003866 Q-loop/lid; other site 477974003867 ABC transporter signature motif; other site 477974003868 Walker B; other site 477974003869 D-loop; other site 477974003870 H-loop/switch region; other site 477974003871 Smr domain; Region: Smr; cl02619 477974003872 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 477974003873 Peptidase family U32; Region: Peptidase_U32; cl03113 477974003874 Collagenase; Region: DUF3656; pfam12392 477974003875 Peptidase family U32; Region: Peptidase_U32; cl03113 477974003876 Uncharacterized conserved protein [Function unknown]; Region: COG0327 477974003877 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 477974003878 Cell division protein ZapA; Region: ZapA; cl01146 477974003879 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 477974003880 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 477974003881 putative tRNA-binding site [nucleotide binding]; other site 477974003882 B3/4 domain; Region: B3_4; cl11458 477974003883 tRNA synthetase B5 domain; Region: B5; cl08394 477974003884 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 477974003885 dimer interface [polypeptide binding]; other site 477974003886 motif 1; other site 477974003887 motif 3; other site 477974003888 motif 2; other site 477974003889 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 477974003890 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 477974003891 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 477974003892 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 477974003893 dimer interface [polypeptide binding]; other site 477974003894 motif 1; other site 477974003895 active site 477974003896 motif 2; other site 477974003897 motif 3; other site 477974003898 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 477974003899 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 477974003900 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 477974003901 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 477974003902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974003903 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 477974003904 ribosomal protein L20; Region: rpl20; CHL00068 477974003905 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 477974003906 23S rRNA binding site [nucleotide binding]; other site 477974003907 L21 binding site [polypeptide binding]; other site 477974003908 L13 binding site [polypeptide binding]; other site 477974003909 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 477974003910 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 477974003911 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 477974003912 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 477974003913 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 477974003914 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 477974003915 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 477974003916 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 477974003917 active site 477974003918 dimer interface [polypeptide binding]; other site 477974003919 motif 1; other site 477974003920 motif 2; other site 477974003921 motif 3; other site 477974003922 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 477974003923 anticodon binding site; other site 477974003924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 477974003925 YtxC-like family; Region: YtxC; cl08500 477974003926 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 477974003927 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 477974003928 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 477974003929 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 477974003930 Walker A/P-loop; other site 477974003931 ATP binding site [chemical binding]; other site 477974003932 Q-loop/lid; other site 477974003933 ABC transporter signature motif; other site 477974003934 Walker B; other site 477974003935 D-loop; other site 477974003936 H-loop/switch region; other site 477974003937 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 477974003938 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 477974003939 Walker A/P-loop; other site 477974003940 ATP binding site [chemical binding]; other site 477974003941 Q-loop/lid; other site 477974003942 ABC transporter signature motif; other site 477974003943 Walker B; other site 477974003944 D-loop; other site 477974003945 H-loop/switch region; other site 477974003946 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 477974003947 TM-ABC transporter signature motif; other site 477974003948 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 477974003949 TM-ABC transporter signature motif; other site 477974003950 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 477974003951 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 477974003952 putative ligand binding site [chemical binding]; other site 477974003953 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 477974003954 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974003955 Family description; Region: UvrD_C_2; cl15862 477974003956 Protein of unknown function (DUF1847); Region: DUF1847; cl02037 477974003957 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 477974003958 active site 477974003959 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 477974003960 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 477974003961 ATP binding site [chemical binding]; other site 477974003962 Mg++ binding site [ion binding]; other site 477974003963 motif III; other site 477974003964 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 477974003965 nucleotide binding region [chemical binding]; other site 477974003966 ATP-binding site [chemical binding]; other site 477974003967 DbpA RNA binding domain; Region: DbpA; pfam03880 477974003968 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 477974003969 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 477974003970 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 477974003971 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 477974003972 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 477974003973 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 477974003974 DNA polymerase I; Provisional; Region: PRK05755 477974003975 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 477974003976 active site 477974003977 metal binding site 1 [ion binding]; metal-binding site 477974003978 putative 5' ssDNA interaction site; other site 477974003979 metal binding site 3; metal-binding site 477974003980 metal binding site 2 [ion binding]; metal-binding site 477974003981 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 477974003982 putative DNA binding site [nucleotide binding]; other site 477974003983 putative metal binding site [ion binding]; other site 477974003984 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 477974003985 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 477974003986 active site 477974003987 DNA binding site [nucleotide binding] 477974003988 catalytic site [active] 477974003989 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 477974003990 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 477974003991 DNA binding site [nucleotide binding] 477974003992 catalytic residue [active] 477974003993 H2TH interface [polypeptide binding]; other site 477974003994 putative catalytic residues [active] 477974003995 turnover-facilitating residue; other site 477974003996 intercalation triad [nucleotide binding]; other site 477974003997 8OG recognition residue [nucleotide binding]; other site 477974003998 putative reading head residues; other site 477974003999 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 477974004000 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 477974004001 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 477974004002 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 477974004003 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 477974004004 CoA-binding site [chemical binding]; other site 477974004005 ATP-binding [chemical binding]; other site 477974004006 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 catalyze...; Region: LT_GEWL; cd00254 477974004007 N-acetyl-D-glucosamine binding site [chemical binding]; other site 477974004008 catalytic residue [active] 477974004009 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 477974004010 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 477974004011 active site 477974004012 HIGH motif; other site 477974004013 nucleotide binding site [chemical binding]; other site 477974004014 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 477974004015 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 477974004016 active site 477974004017 KMSKS motif; other site 477974004018 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 477974004019 tRNA binding surface [nucleotide binding]; other site 477974004020 anticodon binding site; other site 477974004021 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 477974004022 DivIVA domain; Region: DivI1A_domain; TIGR03544 477974004023 DivIVA protein; Region: DivIVA; pfam05103 477974004024 YGGT family; Region: YGGT; cl00508 477974004025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974004026 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 477974004027 Protein of unknown function (DUF552); Region: DUF552; cl00775 477974004028 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 477974004029 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 477974004030 catalytic residue [active] 477974004031 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 477974004032 PhoU domain; Region: PhoU; pfam01895 477974004033 PhoU domain; Region: PhoU; pfam01895 477974004034 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 477974004035 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 477974004036 Walker A/P-loop; other site 477974004037 ATP binding site [chemical binding]; other site 477974004038 Q-loop/lid; other site 477974004039 ABC transporter signature motif; other site 477974004040 Walker B; other site 477974004041 D-loop; other site 477974004042 H-loop/switch region; other site 477974004043 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 477974004044 dimerization interface [polypeptide binding]; other site 477974004045 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 477974004046 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 477974004047 putative active site [active] 477974004048 heme pocket [chemical binding]; other site 477974004049 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 477974004050 dimer interface [polypeptide binding]; other site 477974004051 phosphorylation site [posttranslational modification] 477974004052 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 477974004053 ATP binding site [chemical binding]; other site 477974004054 Mg2+ binding site [ion binding]; other site 477974004055 G-X-G motif; other site 477974004056 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 477974004057 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 477974004058 active site 477974004059 phosphorylation site [posttranslational modification] 477974004060 intermolecular recognition site; other site 477974004061 dimerization interface [polypeptide binding]; other site 477974004062 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 477974004063 DNA binding site [nucleotide binding] 477974004064 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 477974004065 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 477974004066 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 477974004067 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 477974004068 Beta-Casp domain; Region: Beta-Casp; cl12567 477974004069 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 477974004070 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 477974004071 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 477974004072 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 477974004073 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 477974004074 sporulation sigma factor SigG; Reviewed; Region: PRK08215 477974004075 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974004076 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 477974004077 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 477974004078 DNA binding residues [nucleotide binding] 477974004079 sporulation sigma factor SigE; Reviewed; Region: PRK08301 477974004080 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974004081 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 477974004082 DNA binding residues [nucleotide binding] 477974004083 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 477974004084 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 477974004085 cell division protein FtsZ; Validated; Region: PRK09330 477974004086 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 477974004087 nucleotide binding site [chemical binding]; other site 477974004088 SulA interaction site; other site 477974004089 Protein of unknown function (DUF1290); Region: DUF1290; cl01587 477974004090 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 477974004091 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 477974004092 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 477974004093 Cell division protein FtsQ; Region: FtsQ; pfam03799 477974004094 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 477974004095 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 477974004096 hinge; other site 477974004097 active site 477974004098 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 477974004099 FAD binding domain; Region: FAD_binding_4; pfam01565 477974004100 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 477974004101 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 477974004102 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 477974004103 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 477974004104 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 477974004105 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 477974004106 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 477974004107 active site 477974004108 homodimer interface [polypeptide binding]; other site 477974004109 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 477974004110 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 477974004111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974004112 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 477974004113 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 477974004114 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 477974004115 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 477974004116 Mg++ binding site [ion binding]; other site 477974004117 putative catalytic motif [active] 477974004118 putative substrate binding site [chemical binding]; other site 477974004119 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 477974004120 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 477974004121 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 477974004122 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 477974004123 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 477974004124 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 477974004125 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 477974004126 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 477974004127 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 477974004128 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 477974004129 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 477974004130 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 477974004131 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 477974004132 Septum formation initiator; Region: DivIC; cl11433 477974004133 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 477974004134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974004135 cell division protein MraZ; Reviewed; Region: PRK00326 477974004136 MraZ protein; Region: MraZ; pfam02381 477974004137 MraZ protein; Region: MraZ; pfam02381 477974004138 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 477974004139 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974004140 histidinol-phosphatase; Provisional; Region: PRK07328 477974004141 PHP-associated; Region: PHP_C; pfam13263 477974004142 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 477974004143 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 477974004144 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 477974004145 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 477974004146 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 477974004147 homodimer interface [polypeptide binding]; other site 477974004148 oligonucleotide binding site [chemical binding]; other site 477974004149 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 477974004150 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 477974004151 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 477974004152 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 477974004153 B12 binding site [chemical binding]; other site 477974004154 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 477974004155 FeS/SAM binding site; other site 477974004156 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 477974004157 active site 477974004158 putative substrate binding region [chemical binding]; other site 477974004159 Peptidase family M23; Region: Peptidase_M23; pfam01551 477974004160 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 477974004161 S-adenosylmethionine binding site [chemical binding]; other site 477974004162 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 477974004163 Septum formation topological specificity factor MinE; Region: MinE; cl00538 477974004164 septum site-determining protein MinD; Region: minD_bact; TIGR01968 477974004165 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 477974004166 Switch I; other site 477974004167 Switch II; other site 477974004168 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 477974004169 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 477974004170 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 477974004171 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 477974004172 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 477974004173 rod shape-determining protein MreD; Region: MreD; cl01087 477974004174 rod shape-determining protein MreC; Provisional; Region: PRK13922 477974004175 rod shape-determining protein MreC; Region: MreC; pfam04085 477974004176 rod shape-determining protein MreB; Provisional; Region: PRK13927 477974004177 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 477974004178 ATP binding site [chemical binding]; other site 477974004179 Cell division protein FtsA; Region: FtsA; cl11496 477974004180 hypothetical protein; Reviewed; Region: PRK00024 477974004181 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 477974004182 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 477974004183 MPN+ (JAMM) motif; other site 477974004184 Zinc-binding site [ion binding]; other site 477974004185 Maf-like protein; Provisional; Region: PRK14361 477974004186 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 477974004187 active site 477974004188 dimer interface [polypeptide binding]; other site 477974004189 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 477974004190 homotrimer interaction site [polypeptide binding]; other site 477974004191 putative active site [active] 477974004192 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 477974004193 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 477974004194 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 477974004195 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 477974004196 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 477974004197 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 477974004198 HIGH motif; other site 477974004199 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 477974004200 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 477974004201 active site 477974004202 KMSKS motif; other site 477974004203 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 477974004204 tRNA binding surface [nucleotide binding]; other site 477974004205 anticodon binding site; other site 477974004206 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 477974004207 NMT1-like family; Region: NMT1_2; cl15260 477974004208 NMT1/THI5 like; Region: NMT1; pfam09084 477974004209 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 477974004210 Found in ATP-dependent protease La (LON); Region: LON; smart00464 477974004211 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 477974004212 Walker A motif; other site 477974004213 ATP binding site [chemical binding]; other site 477974004214 Walker B motif; other site 477974004215 arginine finger; other site 477974004216 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 477974004217 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 477974004218 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 477974004219 Walker A motif; other site 477974004220 ATP binding site [chemical binding]; other site 477974004221 Walker B motif; other site 477974004222 arginine finger; other site 477974004223 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 477974004224 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 477974004225 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 477974004226 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974004227 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 477974004228 Walker A motif; other site 477974004229 ATP binding site [chemical binding]; other site 477974004230 Walker B motif; other site 477974004231 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 477974004232 Clp protease; Region: CLP_protease; pfam00574 477974004233 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 477974004234 oligomer interface [polypeptide binding]; other site 477974004235 active site residues [active] 477974004236 trigger factor; Provisional; Region: tig; PRK01490 477974004237 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 477974004238 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 477974004239 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 477974004240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974004241 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 477974004242 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 477974004243 ligand binding site [chemical binding]; other site 477974004244 flexible hinge region; other site 477974004245 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 477974004246 putative switch regulator; other site 477974004247 non-specific DNA interactions [nucleotide binding]; other site 477974004248 DNA binding site [nucleotide binding] 477974004249 sequence specific DNA binding site [nucleotide binding]; other site 477974004250 putative cAMP binding site [chemical binding]; other site 477974004251 Gas vesicle protein; Region: Gas_vesicle; cl02954 477974004252 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 477974004253 Gas vesicle protein K; Region: GvpK; pfam05121 477974004254 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 477974004255 putative dimer interface [polypeptide binding]; other site 477974004256 Gas vesicle protein; Region: Gas_vesicle; cl02954 477974004257 Gas vesicle protein G; Region: GvpG; pfam05120 477974004258 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 477974004259 AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243 477974004260 Cell division protein 48 (CDC48), N-terminal domain; Region: CDC48_N; pfam02359 477974004261 Cell division protein 48 (CDC48), domain 2; Region: CDC48_2; cl08380 477974004262 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 477974004263 Walker A motif; other site 477974004264 ATP binding site [chemical binding]; other site 477974004265 Walker B motif; other site 477974004266 arginine finger; other site 477974004267 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 477974004268 Walker A motif; other site 477974004269 ATP binding site [chemical binding]; other site 477974004270 Walker B motif; other site 477974004271 arginine finger; other site 477974004272 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 477974004273 putative dimer interface [polypeptide binding]; other site 477974004274 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 477974004275 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 477974004276 Walker A motif; other site 477974004277 ATP binding site [chemical binding]; other site 477974004278 Walker B motif; other site 477974004279 arginine finger; other site 477974004280 Gas vesicle synthesis protein GvpO; Region: GvpO; pfam05800 477974004281 Gas vesicle protein; Region: Gas_vesicle; cl02954 477974004282 Gas vesicle protein; Region: Gas_vesicle; cl02954 477974004283 Helix-turn-helix domains; Region: HTH; cl00088 477974004284 Winged helix-turn helix; Region: HTH_29; pfam13551 477974004285 Integrase core domain; Region: rve; cl01316 477974004286 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974004287 Transposase domain (DUF772); Region: DUF772; cl15789 477974004288 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974004289 Transposase domain (DUF772); Region: DUF772; cl15789 477974004290 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 477974004291 active site 477974004292 dimerization interface [polypeptide binding]; other site 477974004293 ribonuclease PH; Reviewed; Region: rph; PRK00173 477974004294 Ribonuclease PH; Region: RNase_PH_bact; cd11362 477974004295 hexamer interface [polypeptide binding]; other site 477974004296 active site 477974004297 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 477974004298 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 477974004299 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 477974004300 Bacterial SH3 domain; Region: SH3_3; cl02551 477974004301 Bacterial SH3 domain; Region: SH3_3; cl02551 477974004302 Bacterial SH3 domain; Region: SH3_3; cl02551 477974004303 Bacterial SH3 domain; Region: SH3_3; cl02551 477974004304 Bacterial SH3 domain; Region: SH3_3; cl02551 477974004305 AMIN domain; Region: AMIN; pfam11741 477974004306 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 477974004307 active site 477974004308 metal binding site [ion binding]; metal-binding site 477974004309 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 477974004310 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 477974004311 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 477974004312 EVE domain; Region: EVE; cl00728 477974004313 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974004314 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 477974004315 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 477974004316 dimer interface [polypeptide binding]; other site 477974004317 NAD binding site [chemical binding]; other site 477974004318 substrate binding site [chemical binding]; other site 477974004319 tetramer (dimer of dimers) interface [polypeptide binding]; other site 477974004320 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974004321 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 477974004322 Fe-S cluster binding site [ion binding]; other site 477974004323 active site 477974004324 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 477974004325 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 477974004326 active site 477974004327 HIGH motif; other site 477974004328 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 477974004329 active site 477974004330 KMSKS motif; other site 477974004331 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 477974004332 DNA binding site [nucleotide binding] 477974004333 active site 477974004334 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 477974004335 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 477974004336 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974004337 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 477974004338 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 477974004339 selenophosphate synthetase; Provisional; Region: PRK00943 477974004340 dimerization interface [polypeptide binding]; other site 477974004341 putative ATP binding site [chemical binding]; other site 477974004342 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 477974004343 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 477974004344 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 477974004345 switch II; other site 477974004346 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 477974004347 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 477974004348 Walker A/P-loop; other site 477974004349 ATP binding site [chemical binding]; other site 477974004350 Q-loop/lid; other site 477974004351 ABC transporter signature motif; other site 477974004352 Walker B; other site 477974004353 D-loop; other site 477974004354 H-loop/switch region; other site 477974004355 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 477974004356 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family; Region: bind_CPR_0540; TIGR03850 477974004357 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 477974004358 AAA domain; Region: AAA_32; pfam13654 477974004359 ATP-dependent protease Lon; Provisional; Region: PRK13765 477974004360 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 477974004361 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 477974004362 phospholipid-translocating P-type ATPase, flippase; Region: ATPase-Plipid; TIGR01652 477974004363 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 477974004364 K+-transporting ATPase, B subunit; Region: kdpB; TIGR01497 477974004365 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 477974004366 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 477974004367 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 477974004368 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 477974004369 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 477974004370 ABC-ATPase subunit interface; other site 477974004371 dimer interface [polypeptide binding]; other site 477974004372 putative PBP binding regions; other site 477974004373 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; cl00159 477974004374 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 477974004375 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 477974004376 4Fe-4S binding domain; Region: Fer4; cl02805 477974004377 4Fe-4S binding domain; Region: Fer4; cl02805 477974004378 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 477974004379 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 477974004380 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 477974004381 Helix-turn-helix domains; Region: HTH; cl00088 477974004382 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 477974004383 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 477974004384 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974004385 G1 box; other site 477974004386 GTP/Mg2+ binding site [chemical binding]; other site 477974004387 G2 box; other site 477974004388 Switch I region; other site 477974004389 G3 box; other site 477974004390 Switch II region; other site 477974004391 G4 box; other site 477974004392 G5 box; other site 477974004393 Nucleoside recognition; Region: Gate; cl00486 477974004394 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 477974004395 Nucleoside recognition; Region: Gate; cl00486 477974004396 FeoA domain; Region: FeoA; cl00838 477974004397 YibE/F-like protein; Region: YibE_F; cl02259 477974004398 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 477974004399 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 477974004400 Helix-turn-helix domains; Region: HTH; cl00088 477974004401 Rrf2 family protein; Region: rrf2_super; TIGR00738 477974004402 Predicted GTPase [General function prediction only]; Region: DRG; COG1163 477974004403 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974004404 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974004405 G1 box; other site 477974004406 G1 box; other site 477974004407 GTP/Mg2+ binding site [chemical binding]; other site 477974004408 GTP/Mg2+ binding site [chemical binding]; other site 477974004409 G2 box; other site 477974004410 Switch I region; other site 477974004411 G3 box; other site 477974004412 Switch II region; other site 477974004413 G4 box; other site 477974004414 G5 box; other site 477974004415 TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it...; Region: TGS_DRG_C; cd01666 477974004416 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 477974004417 putative CheA interaction surface; other site 477974004418 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 477974004419 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 477974004420 dimerization interface [polypeptide binding]; other site 477974004421 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 477974004422 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 477974004423 dimer interface [polypeptide binding]; other site 477974004424 putative CheW interface [polypeptide binding]; other site 477974004425 HEAT repeats; Region: HEAT_2; pfam13646 477974004426 HEAT repeat; Region: HEAT; pfam02985 477974004427 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 477974004428 active site 477974004429 metal-binding site [ion binding] 477974004430 nucleotide-binding site [chemical binding]; other site 477974004431 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 477974004432 D-galactonate transporter; Region: 2A0114; TIGR00893 477974004433 putative substrate translocation pore; other site 477974004434 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974004435 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 477974004436 active site 477974004437 catalytic site [active] 477974004438 substrate binding site [chemical binding]; other site 477974004439 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 477974004440 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 477974004441 ligand binding site [chemical binding]; other site 477974004442 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 477974004443 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 477974004444 metal binding triad; other site 477974004445 Sodium:solute symporter family; Region: SSF; cl00456 477974004446 Sodium:solute symporter family; Region: SSF; cl00456 477974004447 Protein of unknown function, DUF485; Region: DUF485; cl01231 477974004448 acetyl-CoA synthetase; Provisional; Region: PRK00174 477974004449 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 477974004450 AMP-binding enzyme; Region: AMP-binding; cl15778 477974004451 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 477974004452 AMP-binding enzyme; Region: AMP-binding; cl15778 477974004453 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 477974004454 AMP-binding enzyme; Region: AMP-binding; cl15778 477974004455 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 477974004456 ACT domain-containing protein [General function prediction only]; Region: COG4747 477974004457 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 477974004458 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 477974004459 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 477974004460 non-heme iron binding site [ion binding]; other site 477974004461 dimer interface [polypeptide binding]; other site 477974004462 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 477974004463 Polysulphide reductase, NrfD; Region: NrfD; cl01295 477974004464 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 477974004465 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 477974004466 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 477974004467 molybdopterin cofactor binding site; other site 477974004468 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 477974004469 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 477974004470 molybdopterin cofactor binding site; other site 477974004471 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 477974004472 Probable transposase; Region: OrfB_IS605; pfam01385 477974004473 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 477974004474 Transposase IS200 like; Region: Y1_Tnp; cl00848 477974004475 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 477974004476 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 477974004477 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 477974004478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974004479 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 477974004480 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 477974004481 substrate binding site [chemical binding]; other site 477974004482 hexamer interface [polypeptide binding]; other site 477974004483 metal binding site [ion binding]; metal-binding site 477974004484 GTPase RsgA; Reviewed; Region: PRK00098 477974004485 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 477974004486 RNA binding site [nucleotide binding]; other site 477974004487 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 477974004488 GTPase/Zn-binding domain interface [polypeptide binding]; other site 477974004489 GTP/Mg2+ binding site [chemical binding]; other site 477974004490 G4 box; other site 477974004491 G5 box; other site 477974004492 G1 box; other site 477974004493 Switch I region; other site 477974004494 G2 box; other site 477974004495 G3 box; other site 477974004496 Switch II region; other site 477974004497 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 477974004498 Catalytic domain of Protein Kinases; Region: PKc; cd00180 477974004499 active site 477974004500 ATP binding site [chemical binding]; other site 477974004501 substrate binding site [chemical binding]; other site 477974004502 activation loop (A-loop); other site 477974004503 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 477974004504 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 477974004505 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 477974004506 Protein phosphatase 2C; Region: PP2C; pfam00481 477974004507 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 477974004508 active site 477974004509 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 477974004510 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 477974004511 FeS/SAM binding site; other site 477974004512 16S rRNA methyltransferase B; Provisional; Region: PRK14902 477974004513 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 477974004514 putative RNA binding site [nucleotide binding]; other site 477974004515 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 477974004516 S-adenosylmethionine binding site [chemical binding]; other site 477974004517 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 477974004518 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 477974004519 putative active site [active] 477974004520 substrate binding site [chemical binding]; other site 477974004521 putative cosubstrate binding site; other site 477974004522 catalytic site [active] 477974004523 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 477974004524 substrate binding site [chemical binding]; other site 477974004525 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 477974004526 active site 477974004527 catalytic residues [active] 477974004528 metal binding site [ion binding]; metal-binding site 477974004529 primosome assembly protein PriA; Validated; Region: PRK05580 477974004530 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 477974004531 ATP binding site [chemical binding]; other site 477974004532 putative Mg++ binding site [ion binding]; other site 477974004533 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 477974004534 nucleotide binding region [chemical binding]; other site 477974004535 ATP-binding site [chemical binding]; other site 477974004536 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 477974004537 Flavoprotein; Region: Flavoprotein; cl08021 477974004538 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 477974004539 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 477974004540 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 477974004541 catalytic site [active] 477974004542 G-X2-G-X-G-K; other site 477974004543 Domain of unknown function (DUF370); Region: DUF370; cl00898 477974004544 hypothetical protein; Provisional; Region: PRK11820 477974004545 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 477974004546 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 477974004547 aspartate aminotransferase; Provisional; Region: PRK05764 477974004548 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 477974004549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974004550 homodimer interface [polypeptide binding]; other site 477974004551 catalytic residue [active] 477974004552 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 477974004553 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 477974004554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974004555 homodimer interface [polypeptide binding]; other site 477974004556 catalytic residue [active] 477974004557 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 477974004558 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 477974004559 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 477974004560 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 477974004561 peptidase T-like protein; Region: PepT-like; TIGR01883 477974004562 metal binding site [ion binding]; metal-binding site 477974004563 putative dimer interface [polypeptide binding]; other site 477974004564 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 477974004565 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 477974004566 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 477974004567 TPP-binding site [chemical binding]; other site 477974004568 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 477974004569 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 477974004570 dimer interface [polypeptide binding]; other site 477974004571 PYR/PP interface [polypeptide binding]; other site 477974004572 TPP binding site [chemical binding]; other site 477974004573 substrate binding site [chemical binding]; other site 477974004574 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 477974004575 AAA domain; Region: AAA_31; pfam13614 477974004576 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 477974004577 Ligand binding site; other site 477974004578 Putative Catalytic site; other site 477974004579 DXD motif; other site 477974004580 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 477974004581 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 477974004582 Thiamine pyrophosphokinase; Region: TPK; cl08415 477974004583 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 477974004584 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 477974004585 active site 477974004586 phosphorylation site [posttranslational modification] 477974004587 intermolecular recognition site; other site 477974004588 dimerization interface [polypeptide binding]; other site 477974004589 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 477974004590 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 477974004591 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 477974004592 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 477974004593 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 477974004594 nucleotide binding pocket [chemical binding]; other site 477974004595 K-X-D-G motif; other site 477974004596 catalytic site [active] 477974004597 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 477974004598 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 477974004599 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 477974004600 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 477974004601 Dimer interface [polypeptide binding]; other site 477974004602 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 477974004603 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 477974004604 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974004605 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 477974004606 Family description; Region: UvrD_C_2; cl15862 477974004607 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 477974004608 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 477974004609 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 477974004610 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 477974004611 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 477974004612 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 477974004613 substrate binding site [chemical binding]; other site 477974004614 glutamase interaction surface [polypeptide binding]; other site 477974004615 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 477974004616 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 477974004617 catalytic residues [active] 477974004618 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 477974004619 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 477974004620 putative active site [active] 477974004621 oxyanion strand; other site 477974004622 catalytic triad [active] 477974004623 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 477974004624 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 477974004625 putative active site pocket [active] 477974004626 4-fold oligomerization interface [polypeptide binding]; other site 477974004627 metal binding residues [ion binding]; metal-binding site 477974004628 3-fold/trimer interface [polypeptide binding]; other site 477974004629 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 477974004630 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 477974004631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974004632 homodimer interface [polypeptide binding]; other site 477974004633 catalytic residue [active] 477974004634 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 477974004635 histidinol dehydrogenase; Region: hisD; TIGR00069 477974004636 NAD binding site [chemical binding]; other site 477974004637 dimerization interface [polypeptide binding]; other site 477974004638 product binding site; other site 477974004639 substrate binding site [chemical binding]; other site 477974004640 zinc binding site [ion binding]; other site 477974004641 catalytic residues [active] 477974004642 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 477974004643 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 477974004644 ATP-grasp domain; Region: ATP-grasp_4; cl03087 477974004645 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 477974004646 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 477974004647 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 477974004648 purine monophosphate binding site [chemical binding]; other site 477974004649 dimer interface [polypeptide binding]; other site 477974004650 putative catalytic residues [active] 477974004651 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 477974004652 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 477974004653 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 477974004654 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 477974004655 active site 477974004656 substrate binding site [chemical binding]; other site 477974004657 cosubstrate binding site; other site 477974004658 catalytic site [active] 477974004659 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 477974004660 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 477974004661 dimerization interface [polypeptide binding]; other site 477974004662 putative ATP binding site [chemical binding]; other site 477974004663 amidophosphoribosyltransferase; Provisional; Region: PRK05793 477974004664 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 477974004665 active site 477974004666 tetramer interface [polypeptide binding]; other site 477974004667 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 477974004668 active site 477974004669 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 477974004670 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 477974004671 ATP binding site [chemical binding]; other site 477974004672 active site 477974004673 substrate binding site [chemical binding]; other site 477974004674 adenylosuccinate lyase; Provisional; Region: PRK07492 477974004675 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 477974004676 tetramer interface [polypeptide binding]; other site 477974004677 active site 477974004678 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 477974004679 GMP synthase; Reviewed; Region: guaA; PRK00074 477974004680 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 477974004681 AMP/PPi binding site [chemical binding]; other site 477974004682 candidate oxyanion hole; other site 477974004683 catalytic triad [active] 477974004684 potential glutamine specificity residues [chemical binding]; other site 477974004685 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 477974004686 ATP Binding subdomain [chemical binding]; other site 477974004687 Ligand Binding sites [chemical binding]; other site 477974004688 Dimerization subdomain; other site 477974004689 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 477974004690 active site 477974004691 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 477974004692 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 477974004693 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 477974004694 Ligand Binding Site [chemical binding]; other site 477974004695 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 477974004696 Ligand Binding Site [chemical binding]; other site 477974004697 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 477974004698 dimerization interface [polypeptide binding]; other site 477974004699 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 477974004700 ATP binding site [chemical binding]; other site 477974004701 Hydrogenase formation hypA family; Region: HypD; cl12072 477974004702 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 477974004703 HupF/HypC family; Region: HupF_HypC; cl00394 477974004704 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 477974004705 Acylphosphatase; Region: Acylphosphatase; cl00551 477974004706 HypF finger; Region: zf-HYPF; pfam07503 477974004707 HypF finger; Region: zf-HYPF; pfam07503 477974004708 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 477974004709 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974004710 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 477974004711 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 477974004712 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 477974004713 nickel binding site [ion binding]; other site 477974004714 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 477974004715 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 477974004716 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 477974004717 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 477974004718 integral membrane protein MviN; Region: mviN; TIGR01695 477974004719 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 477974004720 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 477974004721 active site 477974004722 homotetramer interface [polypeptide binding]; other site 477974004723 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 477974004724 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 477974004725 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 477974004726 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 477974004727 NAD binding site [chemical binding]; other site 477974004728 homodimer interface [polypeptide binding]; other site 477974004729 active site 477974004730 substrate binding site [chemical binding]; other site 477974004731 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 477974004732 nucleotide binding site/active site [active] 477974004733 HIT family signature motif; other site 477974004734 catalytic residue [active] 477974004735 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 477974004736 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 477974004737 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974004738 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 477974004739 Chain length determinant protein; Region: Wzz; cl15801 477974004740 Chain length determinant protein; Region: Wzz; cl15801 477974004741 O-Antigen ligase; Region: Wzy_C; cl04850 477974004742 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 477974004743 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 477974004744 YvrJ protein family; Region: YvrJ; pfam12841 477974004745 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 477974004746 amidase catalytic site [active] 477974004747 Zn binding residues [ion binding]; other site 477974004748 substrate binding site [chemical binding]; other site 477974004749 Sporulation related domain; Region: SPOR; cl10051 477974004750 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 477974004751 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974004752 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974004753 Family description; Region: UvrD_C_2; cl15862 477974004754 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 477974004755 ATP binding site [chemical binding]; other site 477974004756 putative Mg++ binding site [ion binding]; other site 477974004757 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 477974004758 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974004759 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 477974004760 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 477974004761 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 477974004762 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 477974004763 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974004764 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 477974004765 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 477974004766 active site 477974004767 NTP binding site [chemical binding]; other site 477974004768 metal binding triad [ion binding]; metal-binding site 477974004769 antibiotic binding site [chemical binding]; other site 477974004770 Protein of unknown function DUF86; Region: DUF86; cl01031 477974004771 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 477974004772 Protein of unknown function (DUF433); Region: DUF433; cl01030 477974004773 integral membrane protein MviN; Region: mviN; TIGR01695 477974004774 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 477974004775 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 477974004776 NAD binding site [chemical binding]; other site 477974004777 substrate binding site [chemical binding]; other site 477974004778 homodimer interface [polypeptide binding]; other site 477974004779 active site 477974004780 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 477974004781 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 477974004782 NADP binding site [chemical binding]; other site 477974004783 active site 477974004784 putative substrate binding site [chemical binding]; other site 477974004785 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 477974004786 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 477974004787 substrate binding site; other site 477974004788 metal-binding site 477974004789 Oligomer interface; other site 477974004790 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 477974004791 Cupin domain; Region: Cupin_2; cl09118 477974004792 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974004793 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 477974004794 putative ADP-binding pocket [chemical binding]; other site 477974004795 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 477974004796 S-adenosylmethionine binding site [chemical binding]; other site 477974004797 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974004798 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 477974004799 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 477974004800 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 477974004801 Probable Catalytic site; other site 477974004802 metal-binding site 477974004803 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 477974004804 S-adenosylmethionine binding site [chemical binding]; other site 477974004805 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 477974004806 active site 477974004807 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 477974004808 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 477974004809 active site 477974004810 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 477974004811 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 477974004812 inhibitor-cofactor binding pocket; inhibition site 477974004813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974004814 catalytic residue [active] 477974004815 Cupin domain; Region: Cupin_2; cl09118 477974004816 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 477974004817 putative trimer interface [polypeptide binding]; other site 477974004818 putative CoA binding site [chemical binding]; other site 477974004819 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 477974004820 putative trimer interface [polypeptide binding]; other site 477974004821 putative CoA binding site [chemical binding]; other site 477974004822 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 477974004823 Sulfatase; Region: Sulfatase; cl10460 477974004824 Sulfatase; Region: Sulfatase; cl10460 477974004825 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 477974004826 Active Sites [active] 477974004827 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 477974004828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974004829 Bacterial sugar transferase; Region: Bac_transf; cl00939 477974004830 Transcription antiterminator [Transcription]; Region: NusG; COG0250 477974004831 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 477974004832 Helix-turn-helix domains; Region: HTH; cl00088 477974004833 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 477974004834 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 477974004835 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 477974004836 putative active site [active] 477974004837 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 477974004838 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 477974004839 DNA binding residues [nucleotide binding] 477974004840 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 477974004841 catalytic residues [active] 477974004842 catalytic nucleophile [active] 477974004843 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 477974004844 putative active site [active] 477974004845 S-layer homology domain; Region: SLH; pfam00395 477974004846 S-layer homology domain; Region: SLH; pfam00395 477974004847 S-layer homology domain; Region: SLH; pfam00395 477974004848 Tetratricopeptide repeat; Region: TPR_15; pfam13429 477974004849 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 catalyze...; Region: LT_GEWL; cd00254 477974004850 N-acetyl-D-glucosamine binding site [chemical binding]; other site 477974004851 catalytic residue [active] 477974004852 Domain of unknown function (DUF368); Region: DUF368; cl00893 477974004853 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 477974004854 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 477974004855 putative FMN binding site [chemical binding]; other site 477974004856 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 477974004857 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 477974004858 FeS/SAM binding site; other site 477974004859 Response regulator receiver domain; Region: Response_reg; pfam00072 477974004860 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 477974004861 active site 477974004862 phosphorylation site [posttranslational modification] 477974004863 intermolecular recognition site; other site 477974004864 dimerization interface [polypeptide binding]; other site 477974004865 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 477974004866 metal binding site [ion binding]; metal-binding site 477974004867 nucleotidyl binding site; other site 477974004868 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 477974004869 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 477974004870 FeS/SAM binding site; other site 477974004871 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 477974004872 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 477974004873 nucleophile elbow; other site 477974004874 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 477974004875 putative acyl-acceptor binding pocket; other site 477974004876 PAS fold; Region: PAS_3; pfam08447 477974004877 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 477974004878 putative active site [active] 477974004879 heme pocket [chemical binding]; other site 477974004880 GAF domain; Region: GAF_2; pfam13185 477974004881 GAF domain; Region: GAF; cl15785 477974004882 PAS domain S-box; Region: sensory_box; TIGR00229 477974004883 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 477974004884 putative active site [active] 477974004885 heme pocket [chemical binding]; other site 477974004886 PAS fold; Region: PAS_3; pfam08447 477974004887 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 477974004888 GAF domain; Region: GAF_2; pfam13185 477974004889 GAF domain; Region: GAF; cl15785 477974004890 GAF domain; Region: GAF_2; pfam13185 477974004891 GAF domain; Region: GAF; cl15785 477974004892 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974004893 Zn2+ binding site [ion binding]; other site 477974004894 Mg2+ binding site [ion binding]; other site 477974004895 Probable transposase; Region: OrfB_IS605; pfam01385 477974004896 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 477974004897 Transposase IS200 like; Region: Y1_Tnp; cl00848 477974004898 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 477974004899 O-Antigen ligase; Region: Wzy_C; cl04850 477974004900 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 477974004901 TPR motif; other site 477974004902 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 477974004903 binding surface 477974004904 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 477974004905 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 477974004906 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 477974004907 active site 477974004908 ATP binding site [chemical binding]; other site 477974004909 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974004910 Transposase domain (DUF772); Region: DUF772; cl15789 477974004911 flagellar motor switch protein; Validated; Region: PRK08119 477974004912 Chemotaxis phosphatase CheX; Region: CheX; cl15816 477974004913 Chemotaxis phosphatase CheX; Region: CheX; cl15816 477974004914 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 477974004915 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 477974004916 Response regulator receiver domain; Region: Response_reg; pfam00072 477974004917 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 477974004918 active site 477974004919 phosphorylation site [posttranslational modification] 477974004920 intermolecular recognition site; other site 477974004921 dimerization interface [polypeptide binding]; other site 477974004922 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 477974004923 Chemotaxis phosphatase CheX; Region: CheX; cl15816 477974004924 Chemotaxis phosphatase CheX; Region: CheX; cl15816 477974004925 Chemotaxis phosphatase CheX; Region: CheX; cl15816 477974004926 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 477974004927 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 477974004928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974004929 CheD chemotactic sensory transduction; Region: CheD; cl00810 477974004930 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 477974004931 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 477974004932 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 477974004933 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 477974004934 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974004935 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 477974004936 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 477974004937 DNA binding residues [nucleotide binding] 477974004938 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 477974004939 Flagellar protein YcgR; Region: YcgR_2; pfam12945 477974004940 PilZ domain; Region: PilZ; cl01260 477974004941 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 477974004942 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 477974004943 P-loop; other site 477974004944 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 477974004945 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974004946 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 477974004947 FHIPEP family; Region: FHIPEP; pfam00771 477974004948 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 477974004949 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 477974004950 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 477974004951 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 477974004952 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974004953 Transposase domain (DUF772); Region: DUF772; cl15789 477974004954 FliP family; Region: FliP; cl00593 477974004955 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 477974004956 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 477974004957 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 477974004958 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 477974004959 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 477974004960 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 477974004961 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 477974004962 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 477974004963 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 477974004964 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 477974004965 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 477974004966 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 477974004967 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 477974004968 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 477974004969 Walker A motif/ATP binding site; other site 477974004970 Walker B motif; other site 477974004971 Flagellar assembly protein FliH; Region: FliH; pfam02108 477974004972 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 477974004973 FliG C-terminal domain; Region: FliG_C; pfam01706 477974004974 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 477974004975 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 477974004976 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 477974004977 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 477974004978 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 477974004979 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 477974004980 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 477974004981 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 477974004982 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 477974004983 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 477974004984 active site 477974004985 NTP binding site [chemical binding]; other site 477974004986 metal binding triad [ion binding]; metal-binding site 477974004987 antibiotic binding site [chemical binding]; other site 477974004988 Protein of unknown function DUF86; Region: DUF86; cl01031 477974004989 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 477974004990 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 477974004991 inhibitor-cofactor binding pocket; inhibition site 477974004992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974004993 catalytic residue [active] 477974004994 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 477974004995 ligand binding site; other site 477974004996 pseudaminic acid synthase; Region: PseI; TIGR03586 477974004997 NeuB family; Region: NeuB; cl00496 477974004998 SAF domain; Region: SAF; cl00555 477974004999 HAD superfamily (subfamily IA) hydrolase, TIGR02253; Region: CTE7 477974005000 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 477974005001 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 477974005002 motif II; other site 477974005003 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 477974005004 ATP-grasp domain; Region: ATP-grasp_4; cl03087 477974005005 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 477974005006 S-adenosylmethionine binding site [chemical binding]; other site 477974005007 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 477974005008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974005009 NAD(P) binding site [chemical binding]; other site 477974005010 active site 477974005011 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 477974005012 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 477974005013 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 477974005014 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 477974005015 NAD(P) binding site [chemical binding]; other site 477974005016 homodimer interface [polypeptide binding]; other site 477974005017 substrate binding site [chemical binding]; other site 477974005018 active site 477974005019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 477974005020 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 477974005021 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 477974005022 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 477974005023 FlaG protein; Region: FlaG; cl00591 477974005024 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 477974005025 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 477974005026 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 477974005027 Flagellar protein FliS; Region: FliS; cl00654 477974005028 FlgN protein; Region: FlgN; cl09176 477974005029 FlaG protein; Region: FlaG; cl00591 477974005030 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 477974005031 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 477974005032 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 477974005033 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 477974005034 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 477974005035 FlgN protein; Region: FlgN; cl09176 477974005036 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 477974005037 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 477974005038 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 477974005039 active site 477974005040 phosphorylation site [posttranslational modification] 477974005041 intermolecular recognition site; other site 477974005042 dimerization interface [polypeptide binding]; other site 477974005043 CheB methylesterase; Region: CheB_methylest; pfam01339 477974005044 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 477974005045 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 477974005046 putative binding surface; other site 477974005047 active site 477974005048 P2 response regulator binding domain; Region: P2; pfam07194 477974005049 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 477974005050 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 477974005051 ATP binding site [chemical binding]; other site 477974005052 Mg2+ binding site [ion binding]; other site 477974005053 G-X-G motif; other site 477974005054 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 477974005055 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 477974005056 putative CheA interaction surface; other site 477974005057 flagellar motor protein MotA; Validated; Region: PRK08124 477974005058 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 477974005059 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 477974005060 flagellar motor protein MotS; Reviewed; Region: PRK06925 477974005061 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 477974005062 ligand binding site [chemical binding]; other site 477974005063 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 477974005064 CRISPR-associated protein; Region: TIGR03986 477974005065 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 477974005066 CRISPR-associated protein; Region: TIGR03986 477974005067 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 477974005068 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 477974005069 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 477974005070 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 477974005071 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 477974005072 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 477974005073 Transposase domain (DUF772); Region: DUF772; cl15789 477974005074 Transposase domain (DUF772); Region: DUF772; cl15789 477974005075 Transposase domain (DUF772); Region: DUF772; cl15789 477974005076 Transposase domain (DUF772); Region: DUF772; cl15789 477974005077 Transposase domain (DUF772); Region: DUF772; cl15789 477974005078 Transposase domain (DUF772); Region: DUF772; cl15789 477974005079 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 477974005080 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 477974005081 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 477974005082 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 477974005083 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974005084 CRISPR-associated protein Cas5, subtype I-B/TNEAP; Region: cas_Cas5t; TIGR01895 477974005085 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 477974005086 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 477974005087 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 477974005088 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 477974005089 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cd09682 477974005090 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 477974005091 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 477974005092 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cd09748 477974005093 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 477974005094 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 477974005095 Divergent AAA domain; Region: AAA_4; pfam04326 477974005096 CRISPR/Cas system-associated protein Csx15; Region: Csx15_I-U; cd09766 477974005097 CRISPR/Cas system-associated protein Csx15; Region: Csx15_I-U; cd09766 477974005098 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl09839 477974005099 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 477974005100 DNA binding residues [nucleotide binding] 477974005101 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 477974005102 DNA binding residues [nucleotide binding] 477974005103 PemK-like protein; Region: PemK; cl00995 477974005104 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 477974005105 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 477974005106 RNA/DNA hybrid binding site [nucleotide binding]; other site 477974005107 active site 477974005108 Fructose-1,6-bisphosphatase; Region: FBPase_3; cl00862 477974005109 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 477974005110 dimer interface [polypeptide binding]; other site 477974005111 substrate binding site [chemical binding]; other site 477974005112 metal binding sites [ion binding]; metal-binding site 477974005113 CrcB-like protein; Region: CRCB; cl09114 477974005114 FOG: CBS domain [General function prediction only]; Region: COG0517 477974005115 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_24; cd04637 477974005116 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974005117 Zn2+ binding site [ion binding]; other site 477974005118 Mg2+ binding site [ion binding]; other site 477974005119 Response regulator receiver domain; Region: Response_reg; pfam00072 477974005120 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 477974005121 active site 477974005122 phosphorylation site [posttranslational modification] 477974005123 intermolecular recognition site; other site 477974005124 dimerization interface [polypeptide binding]; other site 477974005125 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974005126 metal binding site [ion binding]; metal-binding site 477974005127 active site 477974005128 I-site; other site 477974005129 CobD/Cbib protein; Region: CobD_Cbib; cl00561 477974005130 cobyric acid synthase; Provisional; Region: PRK00784 477974005131 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974005132 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 477974005133 catalytic triad [active] 477974005134 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 477974005135 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 477974005136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974005137 homodimer interface [polypeptide binding]; other site 477974005138 catalytic residue [active] 477974005139 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 477974005140 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974005141 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 477974005142 catalytic triad [active] 477974005143 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 477974005144 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 477974005145 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 477974005146 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 477974005147 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 477974005148 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 477974005149 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 477974005150 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 477974005151 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 477974005152 CbiD; Region: CbiD; cl00828 477974005153 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 477974005154 putative active site [active] 477974005155 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13639 477974005156 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 477974005157 Walker A/P-loop; other site 477974005158 ATP binding site [chemical binding]; other site 477974005159 Q-loop/lid; other site 477974005160 ABC transporter signature motif; other site 477974005161 Walker B; other site 477974005162 D-loop; other site 477974005163 H-loop/switch region; other site 477974005164 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 477974005165 Precorrin-8X methylmutase; Region: CbiC; pfam02570 477974005166 Cobalt transport protein; Region: CbiQ; cl00463 477974005167 Cobalt transport protein component CbiN; Region: CbiN; cl00842 477974005168 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 477974005169 Helix-turn-helix domains; Region: HTH; cl00088 477974005170 Winged helix-turn helix; Region: HTH_29; pfam13551 477974005171 Integrase core domain; Region: rve; cl01316 477974005172 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 477974005173 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 477974005174 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 477974005175 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 477974005176 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 477974005177 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 477974005178 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 477974005179 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 477974005180 HIGH motif; other site 477974005181 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 477974005182 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 477974005183 active site 477974005184 KMSKS motif; other site 477974005185 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 477974005186 tRNA binding surface [nucleotide binding]; other site 477974005187 Oligomerisation domain; Region: Oligomerisation; cl00519 477974005188 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 477974005189 RNA/DNA binding site [nucleotide binding]; other site 477974005190 RRM dimerization site [polypeptide binding]; other site 477974005191 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 477974005192 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 477974005193 active site 477974005194 (T/H)XGH motif; other site 477974005195 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 477974005196 active site 477974005197 metal binding site [ion binding]; metal-binding site 477974005198 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 477974005199 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 477974005200 putative catalytic cysteine [active] 477974005201 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 477974005202 nucleotide binding site/active site [active] 477974005203 HIT family signature motif; other site 477974005204 catalytic residue [active] 477974005205 gamma-glutamyl kinase; Provisional; Region: PRK05429 477974005206 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 477974005207 nucleotide binding site [chemical binding]; other site 477974005208 homotetrameric interface [polypeptide binding]; other site 477974005209 putative phosphate binding site [ion binding]; other site 477974005210 putative allosteric binding site; other site 477974005211 PUA domain; Region: PUA; cl00607 477974005212 GTPase CgtA; Reviewed; Region: obgE; PRK12297 477974005213 GTP1/OBG; Region: GTP1_OBG; pfam01018 477974005214 Obg GTPase; Region: Obg; cd01898 477974005215 G1 box; other site 477974005216 GTP/Mg2+ binding site [chemical binding]; other site 477974005217 Switch I region; other site 477974005218 G2 box; other site 477974005219 G3 box; other site 477974005220 Switch II region; other site 477974005221 G4 box; other site 477974005222 G5 box; other site 477974005223 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 477974005224 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 477974005225 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 477974005226 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 477974005227 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 477974005228 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 477974005229 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 477974005230 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 477974005231 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 477974005232 metal-binding site [ion binding] 477974005233 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 477974005234 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 477974005235 metal-binding site [ion binding] 477974005236 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 477974005237 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 477974005238 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 477974005239 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 477974005240 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 477974005241 protein binding site [polypeptide binding]; other site 477974005242 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 477974005243 Cysteine-rich domain; Region: CCG; pfam02754 477974005244 Cysteine-rich domain; Region: CCG; pfam02754 477974005245 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 477974005246 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 477974005247 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974005248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974005249 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974005250 4Fe-4S binding domain; Region: Fer4; cl02805 477974005251 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 477974005252 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 477974005253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974005254 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 477974005255 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 477974005256 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 477974005257 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 477974005258 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 477974005259 Protein of unknown function (DUF964); Region: DUF964; cl01483 477974005260 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 477974005261 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 477974005262 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 477974005263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974005264 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 477974005265 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 477974005266 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 477974005267 MPT binding site; other site 477974005268 trimer interface [polypeptide binding]; other site 477974005269 MOSC domain; Region: MOSC; pfam03473 477974005270 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 477974005271 trimer interface [polypeptide binding]; other site 477974005272 dimer interface [polypeptide binding]; other site 477974005273 putative active site [active] 477974005274 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 477974005275 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 477974005276 dimer interface [polypeptide binding]; other site 477974005277 putative functional site; other site 477974005278 putative MPT binding site; other site 477974005279 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 477974005280 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 477974005281 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 477974005282 dimer interface [polypeptide binding]; other site 477974005283 putative functional site; other site 477974005284 putative MPT binding site; other site 477974005285 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 477974005286 dimer interface [polypeptide binding]; other site 477974005287 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 477974005288 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 477974005289 active site 477974005290 phosphorylation site [posttranslational modification] 477974005291 intermolecular recognition site; other site 477974005292 dimerization interface [polypeptide binding]; other site 477974005293 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 477974005294 DNA binding site [nucleotide binding] 477974005295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 477974005296 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 477974005297 dimerization interface [polypeptide binding]; other site 477974005298 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 477974005299 dimer interface [polypeptide binding]; other site 477974005300 phosphorylation site [posttranslational modification] 477974005301 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 477974005302 ATP binding site [chemical binding]; other site 477974005303 Mg2+ binding site [ion binding]; other site 477974005304 G-X-G motif; other site 477974005305 Predicted permease; Region: DUF318; pfam03773 477974005306 Predicted permease; Region: DUF318; pfam03773 477974005307 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 477974005308 dimerization interface [polypeptide binding]; other site 477974005309 putative DNA binding site [nucleotide binding]; other site 477974005310 putative Zn2+ binding site [ion binding]; other site 477974005311 hypothetical protein; Provisional; Region: PRK04164 477974005312 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 477974005313 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 477974005314 prephenate dehydratase; Provisional; Region: PRK11898 477974005315 Prephenate dehydratase; Region: PDT; pfam00800 477974005316 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 477974005317 putative L-Phe binding site [chemical binding]; other site 477974005318 Chorismate mutase type II; Region: CM_2; cl00693 477974005319 NeuB family; Region: NeuB; cl00496 477974005320 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 477974005321 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 477974005322 GAF domain; Region: GAF_2; pfam13185 477974005323 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 477974005324 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 477974005325 dimer interface [polypeptide binding]; other site 477974005326 phosphorylation site [posttranslational modification] 477974005327 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 477974005328 ATP binding site [chemical binding]; other site 477974005329 Mg2+ binding site [ion binding]; other site 477974005330 G-X-G motif; other site 477974005331 Response regulator receiver domain; Region: Response_reg; pfam00072 477974005332 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 477974005333 active site 477974005334 phosphorylation site [posttranslational modification] 477974005335 intermolecular recognition site; other site 477974005336 dimerization interface [polypeptide binding]; other site 477974005337 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 477974005338 TM-ABC transporter signature motif; other site 477974005339 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 477974005340 DNA binding residues [nucleotide binding] 477974005341 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 477974005342 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 477974005343 catalytic residues [active] 477974005344 catalytic nucleophile [active] 477974005345 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 477974005346 non-specific DNA binding site [nucleotide binding]; other site 477974005347 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 477974005348 salt bridge; other site 477974005349 sequence-specific DNA binding site [nucleotide binding]; other site 477974005350 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 477974005351 Catalytic site [active] 477974005352 Flagellin N-methylase; Region: FliB; cl00497 477974005353 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 477974005354 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 477974005355 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 477974005356 RmuC family; Region: RmuC; pfam02646 477974005357 NAD-dependent deacetylase; Provisional; Region: PRK00481 477974005358 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 477974005359 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974005360 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 477974005361 dimer interface [polypeptide binding]; other site 477974005362 [2Fe-2S] cluster binding site [ion binding]; other site 477974005363 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 477974005364 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 477974005365 SLBB domain; Region: SLBB; pfam10531 477974005366 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 477974005367 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 477974005368 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 477974005369 putative dimer interface [polypeptide binding]; other site 477974005370 [2Fe-2S] cluster binding site [ion binding]; other site 477974005371 pyruvate phosphate dikinase; Provisional; Region: PRK09279 477974005372 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 477974005373 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 477974005374 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; cl09155 477974005375 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 477974005376 Fumarase C-terminus; Region: Fumerase_C; cl00795 477974005377 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 477974005378 Iron-sulfur protein interface; other site 477974005379 proximal heme binding site [chemical binding]; other site 477974005380 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 477974005381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974005382 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 477974005383 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 477974005384 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; cl00159 477974005385 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 477974005386 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 477974005387 Ligand Binding Site [chemical binding]; other site 477974005388 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 477974005389 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 477974005390 Spore germination protein; Region: Spore_permease; cl15802 477974005391 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 477974005392 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 477974005393 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 477974005394 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 477974005395 catalytic motif [active] 477974005396 Zn binding site [ion binding]; other site 477974005397 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 477974005398 FMN binding site [chemical binding]; other site 477974005399 dimer interface [polypeptide binding]; other site 477974005400 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 477974005401 Ligand Binding Site [chemical binding]; other site 477974005402 phosphoenolpyruvate synthase; Validated; Region: PRK06464 477974005403 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 477974005404 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 477974005405 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; cl09155 477974005406 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; cl09155 477974005407 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 477974005408 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974005409 Zn2+ binding site [ion binding]; other site 477974005410 Mg2+ binding site [ion binding]; other site 477974005411 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 477974005412 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 477974005413 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 477974005414 G1 box; other site 477974005415 GTP/Mg2+ binding site [chemical binding]; other site 477974005416 Switch I region; other site 477974005417 G2 box; other site 477974005418 G3 box; other site 477974005419 Switch II region; other site 477974005420 G4 box; other site 477974005421 G5 box; other site 477974005422 Nucleoside recognition; Region: Gate; cl00486 477974005423 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 477974005424 Nucleoside recognition; Region: Gate; cl00486 477974005425 FeoA domain; Region: FeoA; cl00838 477974005426 FeoA domain; Region: FeoA; cl00838 477974005427 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 477974005428 Transposase [DNA replication, recombination, and repair]; Region: COG5421 477974005429 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 477974005430 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 477974005431 dimerization interface [polypeptide binding]; other site 477974005432 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 477974005433 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 477974005434 active site 477974005435 metal binding site [ion binding]; metal-binding site 477974005436 homotetramer interface [polypeptide binding]; other site 477974005437 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 477974005438 dimer interface [polypeptide binding]; other site 477974005439 conserved gate region; other site 477974005440 putative PBP binding loops; other site 477974005441 ABC-ATPase subunit interface; other site 477974005442 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 477974005443 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 477974005444 dimer interface [polypeptide binding]; other site 477974005445 conserved gate region; other site 477974005446 putative PBP binding loops; other site 477974005447 ABC-ATPase subunit interface; other site 477974005448 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 477974005449 TPP-binding site [chemical binding]; other site 477974005450 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 477974005451 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 477974005452 dimer interface [polypeptide binding]; other site 477974005453 PYR/PP interface [polypeptide binding]; other site 477974005454 TPP binding site [chemical binding]; other site 477974005455 substrate binding site [chemical binding]; other site 477974005456 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 477974005457 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit [Energy production and conversion]; Region: COG1144 477974005458 4Fe-4S binding domain; Region: Fer4; cl02805 477974005459 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 477974005460 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 477974005461 TPP-binding site [chemical binding]; other site 477974005462 dimer interface [polypeptide binding]; other site 477974005463 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 477974005464 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 477974005465 dimer interface [polypeptide binding]; other site 477974005466 PYR/PP interface [polypeptide binding]; other site 477974005467 TPP binding site [chemical binding]; other site 477974005468 substrate binding site [chemical binding]; other site 477974005469 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 477974005470 Domain of unknown function (DUF897); Region: DUF897; cl01312 477974005471 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 477974005472 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 477974005473 ATP-grasp domain; Region: ATP-grasp_4; cl03087 477974005474 AIR carboxylase; Region: AIRC; cl00310 477974005475 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 477974005476 Transposase [DNA replication, recombination, and repair]; Region: COG5421 477974005477 Arginase family; Region: Arginase; cl00306 477974005478 spermidine synthase; Provisional; Region: PRK00811 477974005479 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 477974005480 S-adenosylmethionine binding site [chemical binding]; other site 477974005481 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 477974005482 AP endonuclease family 2; Region: AP2Ec; smart00518 477974005483 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 477974005484 DNA interaction; other site 477974005485 Metal-binding active site; metal-binding site 477974005486 AP (apurinic/apyrimidinic) site pocket; other site 477974005487 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 477974005488 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 477974005489 peptide binding site [polypeptide binding]; other site 477974005490 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 477974005491 4Fe-4S binding domain; Region: Fer4; cl02805 477974005492 Methyltransferase domain; Region: Methyltransf_31; pfam13847 477974005493 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 477974005494 S-adenosylmethionine binding site [chemical binding]; other site 477974005495 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 477974005496 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 477974005497 FeS/SAM binding site; other site 477974005498 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 477974005499 dimerization interface [polypeptide binding]; other site 477974005500 putative ATP binding site [chemical binding]; other site 477974005501 Helix-turn-helix domains; Region: HTH; cl00088 477974005502 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 477974005503 dimerization interface [polypeptide binding]; other site 477974005504 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 477974005505 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 477974005506 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 477974005507 FeS/SAM binding site; other site 477974005508 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 477974005509 ATP cone domain; Region: ATP-cone; pfam03477 477974005510 Class III ribonucleotide reductase; Region: RNR_III; cd01675 477974005511 effector binding site; other site 477974005512 active site 477974005513 Zn binding site [ion binding]; other site 477974005514 glycine loop; other site 477974005515 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 477974005516 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 477974005517 THF binding site; other site 477974005518 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 477974005519 substrate binding site [chemical binding]; other site 477974005520 THF binding site; other site 477974005521 zinc-binding site [ion binding]; other site 477974005522 Protein of unknown function (DUF541); Region: SIMPL; cl01077 477974005523 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 477974005524 putative peptidoglycan binding site; other site 477974005525 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 477974005526 putative peptidoglycan binding site; other site 477974005527 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 477974005528 Cation efflux family; Region: Cation_efflux; cl00316 477974005529 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 477974005530 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 477974005531 ligand binding site [chemical binding]; other site 477974005532 flexible hinge region; other site 477974005533 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 477974005534 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 477974005535 metal binding triad; other site 477974005536 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 477974005537 active site 477974005538 catalytic site [active] 477974005539 substrate binding site [chemical binding]; other site 477974005540 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 477974005541 Domain of unknown function DUF21; Region: DUF21; pfam01595 477974005542 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 477974005543 Transporter associated domain; Region: CorC_HlyC; cl08393 477974005544 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 477974005545 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 477974005546 ring oligomerisation interface [polypeptide binding]; other site 477974005547 ATP/Mg binding site [chemical binding]; other site 477974005548 stacking interactions; other site 477974005549 hinge regions; other site 477974005550 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 477974005551 oligomerisation interface [polypeptide binding]; other site 477974005552 mobile loop; other site 477974005553 roof hairpin; other site 477974005554 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 477974005555 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 477974005556 UGMP family protein; Validated; Region: PRK09604 477974005557 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 477974005558 Probable zinc-binding domain; Region: zf-trcl; pfam13451 477974005559 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 477974005560 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 477974005561 Coenzyme A binding pocket [chemical binding]; other site 477974005562 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 477974005563 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 477974005564 thiamine monophosphate kinase; Provisional; Region: PRK05731 477974005565 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 477974005566 ATP binding site [chemical binding]; other site 477974005567 dimerization interface [polypeptide binding]; other site 477974005568 ThiC family; Region: ThiC; cl08031 477974005569 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 477974005570 thiamine phosphate binding site [chemical binding]; other site 477974005571 active site 477974005572 pyrophosphate binding site [ion binding]; other site 477974005573 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 477974005574 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 477974005575 active site 477974005576 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 477974005577 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 477974005578 catalytic triad [active] 477974005579 glutamine synthetase, type I; Region: GlnA; TIGR00653 477974005580 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 477974005581 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 477974005582 Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous to...; Region: arch_gltB; cd00981 477974005583 putative subunit interface; other site 477974005584 4Fe-4S binding domain; Region: Fer4; cl02805 477974005585 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 477974005586 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 477974005587 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 477974005588 active site 477974005589 FMN binding site [chemical binding]; other site 477974005590 substrate binding site [chemical binding]; other site 477974005591 3Fe-4S cluster binding site [ion binding]; other site 477974005592 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 477974005593 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 477974005594 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 477974005595 putative active site [active] 477974005596 glutamine synthetase, type I; Region: GlnA; TIGR00653 477974005597 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 477974005598 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 477974005599 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 477974005600 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 477974005601 active site 477974005602 phosphorylation site [posttranslational modification] 477974005603 intermolecular recognition site; other site 477974005604 dimerization interface [polypeptide binding]; other site 477974005605 ANTAR domain; Region: ANTAR; cl04297 477974005606 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 477974005607 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; cl09108 477974005608 phosphate binding site [ion binding]; other site 477974005609 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 477974005610 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 477974005611 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 477974005612 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 477974005613 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 477974005614 active site 477974005615 phosphorylation site [posttranslational modification] 477974005616 intermolecular recognition site; other site 477974005617 dimerization interface [polypeptide binding]; other site 477974005618 ANTAR domain; Region: ANTAR; cl04297 477974005619 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 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 477974005620 homodimer interface [polypeptide binding]; other site 477974005621 substrate-cofactor binding pocket; other site 477974005622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974005623 catalytic residue [active] 477974005624 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 477974005625 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 477974005626 chorismate binding enzyme; Region: Chorismate_bind; cl10555 477974005627 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 477974005628 Major Facilitator Superfamily; Region: MFS_1; pfam07690 477974005629 putative substrate translocation pore; other site 477974005630 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 477974005631 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 477974005632 Ligand Binding Site [chemical binding]; other site 477974005633 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 477974005634 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 477974005635 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 477974005636 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974005637 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 477974005638 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 477974005639 ligand binding site [chemical binding]; other site 477974005640 flexible hinge region; other site 477974005641 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 477974005642 putative switch regulator; other site 477974005643 non-specific DNA interactions [nucleotide binding]; other site 477974005644 DNA binding site [nucleotide binding] 477974005645 sequence specific DNA binding site [nucleotide binding]; other site 477974005646 putative cAMP binding site [chemical binding]; other site 477974005647 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 477974005648 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 477974005649 dimer interface [polypeptide binding]; other site 477974005650 recombination factor protein RarA; Reviewed; Region: PRK13342 477974005651 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 477974005652 Walker A motif; other site 477974005653 ATP binding site [chemical binding]; other site 477974005654 Walker B motif; other site 477974005655 arginine finger; other site 477974005656 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 477974005657 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974005658 VanW like protein; Region: VanW; pfam04294 477974005659 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 477974005660 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 477974005661 putative catalytic cysteine [active] 477974005662 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 477974005663 putative active site [active] 477974005664 metal binding site [ion binding]; metal-binding site 477974005665 GTPase Era; Reviewed; Region: era; PRK00089 477974005666 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 477974005667 G1 box; other site 477974005668 GTP/Mg2+ binding site [chemical binding]; other site 477974005669 Switch I region; other site 477974005670 G2 box; other site 477974005671 Switch II region; other site 477974005672 G3 box; other site 477974005673 G4 box; other site 477974005674 G5 box; other site 477974005675 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 477974005676 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 477974005677 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 477974005678 active site 477974005679 catalytic motif [active] 477974005680 Zn binding site [ion binding]; other site 477974005681 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 477974005682 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 477974005683 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 477974005684 Zn2+ binding site [ion binding]; other site 477974005685 Mg2+ binding site [ion binding]; other site 477974005686 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 477974005687 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974005688 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 477974005689 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 477974005690 YabP family; Region: YabP; cl06766 477974005691 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 477974005692 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 477974005693 nucleotide binding site/active site [active] 477974005694 HIT family signature motif; other site 477974005695 catalytic residue [active] 477974005696 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 477974005697 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 477974005698 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 477974005699 FeS/SAM binding site; other site 477974005700 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 477974005701 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 477974005702 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 477974005703 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 477974005704 S-adenosylmethionine binding site [chemical binding]; other site 477974005705 chaperone protein DnaJ; Provisional; Region: PRK10767 477974005706 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 477974005707 HSP70 interaction site [polypeptide binding]; other site 477974005708 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 477974005709 substrate binding site [polypeptide binding]; other site 477974005710 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 477974005711 Zn binding sites [ion binding]; other site 477974005712 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 477974005713 dimer interface [polypeptide binding]; other site 477974005714 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 477974005715 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 477974005716 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 477974005717 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 477974005718 dimer interface [polypeptide binding]; other site 477974005719 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 477974005720 chaperonin families, type I and type II. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. There are 2 main chaperonin groups. The...; Region: chaperonin_type_I_II; cd00309 477974005721 ring oligomerisation interface [polypeptide binding]; other site 477974005722 TCP-1/cpn60 chaperonin family; Region: Cpn60_TCP1; pfam00118 477974005723 ATP/Mg binding site [chemical binding]; other site 477974005724 hinge regions; other site 477974005725 stacking interactions; other site 477974005726 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 477974005727 Helix-turn-helix domains; Region: HTH; cl00088 477974005728 HrcA protein C terminal domain; Region: HrcA; pfam01628 477974005729 GTP-binding protein LepA; Provisional; Region: PRK05433 477974005730 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 477974005731 G1 box; other site 477974005732 putative GEF interaction site [polypeptide binding]; other site 477974005733 GTP/Mg2+ binding site [chemical binding]; other site 477974005734 Switch I region; other site 477974005735 G2 box; other site 477974005736 G3 box; other site 477974005737 Switch II region; other site 477974005738 G4 box; other site 477974005739 G5 box; other site 477974005740 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 477974005741 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 477974005742 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 477974005743 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 477974005744 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 477974005745 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 477974005746 stage II sporulation protein P; Region: spore_II_P; TIGR02867 477974005747 Membrane protein of unknown function; Region: DUF360; cl00850 477974005748 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 477974005749 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 477974005750 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 477974005751 Domain of unknown function DUF77; Region: DUF77; cl00307 477974005752 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 477974005753 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 477974005754 Competence protein; Region: Competence; cl00471 477974005755 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 477974005756 SLBB domain; Region: SLBB; pfam10531 477974005757 comEA protein; Region: comE; TIGR01259 477974005758 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 477974005759 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 477974005760 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 477974005761 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 477974005762 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 477974005763 dimer interface [polypeptide binding]; other site 477974005764 PYR/PP interface [polypeptide binding]; other site 477974005765 TPP binding site [chemical binding]; other site 477974005766 substrate binding site [chemical binding]; other site 477974005767 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974005768 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 477974005769 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 477974005770 PYR/PP interface [polypeptide binding]; other site 477974005771 dimer interface [polypeptide binding]; other site 477974005772 TPP binding site [chemical binding]; other site 477974005773 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 477974005774 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 477974005775 TPP-binding site [chemical binding]; other site 477974005776 dimer interface [polypeptide binding]; other site 477974005777 peptide chain release factor 2; Provisional; Region: PRK05589 477974005778 RF-1 domain; Region: RF-1; cl02875 477974005779 RF-1 domain; Region: RF-1; cl02875 477974005780 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 477974005781 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974005782 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 477974005783 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974005784 nucleotide binding region [chemical binding]; other site 477974005785 SEC-C motif; Region: SEC-C; pfam02810 477974005786 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 A site; Region: RaiA; cd00552 477974005787 30S subunit binding site; other site 477974005788 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 477974005789 GAF domain; Region: GAF; cl15785 477974005790 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 477974005791 metal binding site [ion binding]; metal-binding site 477974005792 active site 477974005793 I-site; other site 477974005794 S-adenosylmethionine synthetase; Validated; Region: PRK05250 477974005795 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 477974005796 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 477974005797 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 477974005798 Protein of unknown function (DUF1284); Region: DUF1284; cl01419 477974005799 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 477974005800 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 477974005801 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 477974005802 MatE; Region: MatE; cl10513 477974005803 MatE; Region: MatE; cl10513 477974005804 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 477974005805 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 477974005806 active site 477974005807 substrate binding site [chemical binding]; other site 477974005808 metal binding site [ion binding]; metal-binding site 477974005809 Protein of unknown function (DUF421); Region: DUF421; cl00990 477974005810 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 477974005811 active site 477974005812 tetramer interface; other site 477974005813 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 477974005814 Mg++ binding site [ion binding]; other site 477974005815 putative catalytic motif [active] 477974005816 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 477974005817 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 477974005818 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 477974005819 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 477974005820 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 477974005821 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 477974005822 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 477974005823 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 477974005824 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 477974005825 Helix-turn-helix domains; Region: HTH; cl00088 477974005826 transcriptional regulator SlyA; Provisional; Region: PRK03573 477974005827 UbiA prenyltransferase family; Region: UbiA; cl00337 477974005828 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 477974005829 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 477974005830 non-specific DNA binding site [nucleotide binding]; other site 477974005831 salt bridge; other site 477974005832 sequence-specific DNA binding site [nucleotide binding]; other site 477974005833 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 477974005834 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 477974005835 putative active site [active] 477974005836 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 477974005837 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 477974005838 catalytic triad [active] 477974005839 putative active site [active] 477974005840 Bacterial Ig-like domain; Region: Big_5; cl01012 477974005841 S-layer homology domain; Region: SLH; pfam00395 477974005842 S-layer homology domain; Region: SLH; pfam00395 477974005843 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 477974005844 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 477974005845 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 477974005846 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 477974005847 S-layer homology domain; Region: SLH; pfam00395 477974005848 S-layer homology domain; Region: SLH; pfam00395 477974005849 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974005850 Outer membrane efflux protein; Region: OEP; pfam02321 477974005851 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 477974005852 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 477974005853 putative active site [active] 477974005854 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 477974005855 PemK-like protein; Region: PemK; cl00995 477974005856 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 477974005857 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 477974005858 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 477974005859 DNA binding residues [nucleotide binding] 477974005860 Predicted integral membrane protein [Function unknown]; Region: COG5660 477974005861 Putative zinc-finger; Region: zf-HC2; cl15806 477974005862 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 477974005863 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 477974005864 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 477974005865 active site 477974005866 catalytic triad [active] 477974005867 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 477974005868 S-layer homology domain; Region: SLH; pfam00395 477974005869 S-layer homology domain; Region: SLH; pfam00395 477974005870 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 477974005871 putative active site [active] 477974005872 homotetrameric interface [polypeptide binding]; other site 477974005873 metal binding site [ion binding]; metal-binding site 477974005874 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 477974005875 Uncharacterized conserved protein [Function unknown]; Region: COG1751 477974005876 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 477974005877 rod shape-determining protein Mbl; Provisional; Region: PRK13928 477974005878 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 477974005879 ATP binding site [chemical binding]; other site 477974005880 profilin binding site; other site 477974005881 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 477974005882 stage II sporulation protein D; Region: spore_II_D; TIGR02870 477974005883 Stage II sporulation protein; Region: SpoIID; pfam08486 477974005884 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 477974005885 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 477974005886 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 477974005887 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 477974005888 alpha subunit interaction interface [polypeptide binding]; other site 477974005889 Walker A motif; other site 477974005890 ATP binding site [chemical binding]; other site 477974005891 Walker B motif; other site 477974005892 inhibitor binding site; inhibition site 477974005893 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 477974005894 ATP synthase; Region: ATP-synt; cl00365 477974005895 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 477974005896 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 477974005897 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 477974005898 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 477974005899 beta subunit interaction interface [polypeptide binding]; other site 477974005900 Walker A motif; other site 477974005901 ATP binding site [chemical binding]; other site 477974005902 Walker B motif; other site 477974005903 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 477974005904 Plant ATP synthase F0; Region: YMF19; cl07975 477974005905 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 477974005906 Plant ATP synthase F0; Region: YMF19; cl07975 477974005907 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 477974005908 ATP synthase subunit C; Region: ATP-synt_C; cl00466 477974005909 ATP synthase A chain; Region: ATP-synt_A; cl00413 477974005910 ATP synthase I chain; Region: ATP_synt_I; cl09170 477974005911 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 477974005912 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 477974005913 active site 477974005914 homodimer interface [polypeptide binding]; other site 477974005915 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 477974005916 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 477974005917 dimer interface [polypeptide binding]; other site 477974005918 active site 477974005919 glycine-pyridoxal phosphate binding site [chemical binding]; other site 477974005920 folate binding site [chemical binding]; other site 477974005921 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 477974005922 Low molecular weight phosphatase family; Region: LMWPc; cd00115 477974005923 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 477974005924 active site 477974005925 Predicted membrane protein [Function unknown]; Region: COG1971 477974005926 Domain of unknown function DUF; Region: DUF204; pfam02659 477974005927 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 477974005928 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 477974005929 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 477974005930 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 477974005931 S-adenosylmethionine binding site [chemical binding]; other site 477974005932 Transposase IS200 like; Region: Y1_Tnp; cl00848 477974005933 peptide chain release factor 1; Validated; Region: prfA; PRK00591 477974005934 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cl09835 477974005935 RF-1 domain; Region: RF-1; cl02875 477974005936 RF-1 domain; Region: RF-1; cl02875 477974005937 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 477974005938 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 477974005939 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 477974005940 iron-sulfur cluster [ion binding]; other site 477974005941 [2Fe-2S] cluster binding site [ion binding]; other site 477974005942 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 477974005943 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 477974005944 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 477974005945 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 477974005946 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 477974005947 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 477974005948 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 477974005949 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 477974005950 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 477974005951 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 477974005952 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 477974005953 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 477974005954 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 477974005955 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 477974005956 Radical SAM superfamily; Region: Radical_SAM; pfam04055 477974005957 FeS/SAM binding site; other site 477974005958 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 477974005959 putative peptidoglycan binding site; other site 477974005960 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 477974005961 putative peptidoglycan binding site; other site 477974005962 Peptidase family M23; Region: Peptidase_M23; pfam01551 477974005963 transcription termination factor Rho; Provisional; Region: rho; PRK09376 477974005964 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 477974005965 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 477974005966 RNA binding site [nucleotide binding]; other site 477974005967 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 477974005968 multimer interface [polypeptide binding]; other site 477974005969 Walker A motif; other site 477974005970 ATP binding site [chemical binding]; other site 477974005971 Walker B motif; other site 477974005972 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 477974005973 active site 477974005974 intersubunit interactions; other site 477974005975 catalytic residue [active] 477974005976 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 477974005977 hypothetical protein; Provisional; Region: PRK08185 477974005978 intersubunit interface [polypeptide binding]; other site 477974005979 active site 477974005980 zinc binding site [ion binding]; other site 477974005981 Na+ binding site [ion binding]; other site 477974005982 Response regulator receiver domain; Region: Response_reg; pfam00072 477974005983 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 477974005984 active site 477974005985 phosphorylation site [posttranslational modification] 477974005986 intermolecular recognition site; other site 477974005987 dimerization interface [polypeptide binding]; other site 477974005988 Yip1 domain; Region: Yip1; cl12048 477974005989 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 477974005990 tandem repeat interface [polypeptide binding]; other site 477974005991 oligomer interface [polypeptide binding]; other site 477974005992 active site residues [active] 477974005993 CTP synthetase; Validated; Region: pyrG; PRK05380 477974005994 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 477974005995 Catalytic site [active] 477974005996 active site 477974005997 UTP binding site [chemical binding]; other site 477974005998 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 477974005999 active site 477974006000 putative oxyanion hole; other site 477974006001 catalytic triad [active] 477974006002 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 477974006003 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 477974006004 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 477974006005 active site 477974006006 HIGH motif; other site 477974006007 KMSK motif region; other site 477974006008 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 477974006009 tRNA binding surface [nucleotide binding]; other site 477974006010 anticodon binding site; other site 477974006011 hypothetical protein; Validated; Region: PRK07682 477974006012 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 477974006013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 477974006014 homodimer interface [polypeptide binding]; other site 477974006015 catalytic residue [active] 477974006016 Helix-turn-helix domains; Region: HTH; cl00088 477974006017 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 477974006018 Helix-turn-helix domains; Region: HTH; cl00088 477974006019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974006020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974006021 germination protein YpeB; Region: spore_YpeB; TIGR02889 477974006022 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 477974006023 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 477974006024 Active_site [active] 477974006025 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 477974006026 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 477974006027 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 477974006028 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 477974006029 catalytic triad [active] 477974006030 DsrC like protein; Region: DsrC; cl01101 477974006031 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 477974006032 Cysteine-rich domain; Region: CCG; pfam02754 477974006033 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 477974006034 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 477974006035 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 477974006036 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 477974006037 Transposase domain (DUF772); Region: DUF772; cl15789 477974006038 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 477974006039 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 477974006040 HEAT-like repeat; Region: HEAT_EZ; pfam13513 477974006041 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 477974006042 TPR motif; other site 477974006043 TPR repeat; Region: TPR_11; pfam13414 477974006044 binding surface 477974006045 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 477974006046 binding surface 477974006047 TPR motif; other site 477974006048 TPR repeat; Region: TPR_11; pfam13414 477974006049 Tetratricopeptide repeat; Region: TPR_16; pfam13432 477974006050 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 477974006051 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 477974006052 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 477974006053 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 477974006054 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 477974006055 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 477974006056 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 477974006057 hinge; other site 477974006058 active site 477974006059 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 477974006060 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 477974006061 binding surface 477974006062 TPR motif; other site 477974006063 TPR repeat; Region: TPR_11; pfam13414 477974006064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 477974006065 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 477974006066 putative peptidoglycan binding site; other site 477974006067 G5 domain; Region: G5; pfam07501 477974006068 Peptidase family M23; Region: Peptidase_M23; pfam01551 477974006069 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 477974006070 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 477974006071 FeS/SAM binding site; other site 477974006072 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 477974006073 Protein of unknown function (DUF4001); Region: DUF4001; cl14848 477974006074 FOG: CBS domain [General function prediction only]; Region: COG0517 477974006075 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 477974006076 FOG: CBS domain [General function prediction only]; Region: COG0517 477974006077 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 477974006078 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 477974006079 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 477974006080 GDP-binding site [chemical binding]; other site 477974006081 ACT binding site; other site 477974006082 IMP binding site; other site 477974006083 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 477974006084 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974006085 replicative DNA helicase; Region: DnaB; TIGR00665 477974006086 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 477974006087 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 477974006088 Walker A motif; other site 477974006089 ATP binding site [chemical binding]; other site 477974006090 Walker B motif; other site 477974006091 DNA binding loops [nucleotide binding] 477974006092 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 477974006093 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 477974006094 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 477974006095 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 477974006096 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 477974006097 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 477974006098 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 477974006099 dimer interface [polypeptide binding]; other site 477974006100 ssDNA binding site [nucleotide binding]; other site 477974006101 tetramer (dimer of dimers) interface [polypeptide binding]; other site 477974006102 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 477974006103 YchF GTPase; Region: YchF; cd01900 477974006104 Switch II region; other site 477974006105 G3 box; other site 477974006106 GTP/Mg2+ binding site [chemical binding]; other site 477974006107 G4 box; other site 477974006108 G5 box; other site 477974006109 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 477974006110 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 477974006111 Colicin V production protein; Region: Colicin_V; cl00567 477974006112 Colicin V production protein; Region: Colicin_V; cl00567 477974006113 Uncharacterized membrane protein [Function unknown]; Region: COG3949 477974006114 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 477974006115 Uncharacterized protein family (UPF0180); Region: UPF0180; cl04214 477974006116 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 477974006117 active site 477974006118 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 477974006119 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 477974006120 Protein of unknown function DUF111; Region: DUF111; cl03398 477974006121 ParB-like partition proteins; Region: parB_part; TIGR00180 477974006122 ParB-like nuclease domain; Region: ParBc; cl02129 477974006123 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 477974006124 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 477974006125 P-loop; other site 477974006126 Magnesium ion binding site [ion binding]; other site 477974006127 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 477974006128 Magnesium ion binding site [ion binding]; other site 477974006129 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; cl15754 477974006130 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 477974006131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 477974006132 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 477974006133 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 477974006134 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 477974006135 trmE is a tRNA modification GTPase; Region: trmE; cd04164 477974006136 G1 box; other site 477974006137 GTP/Mg2+ binding site [chemical binding]; other site 477974006138 Switch I region; other site 477974006139 G2 box; other site 477974006140 Switch II region; other site 477974006141 G3 box; other site 477974006142 G4 box; other site 477974006143 G5 box; other site 477974006144 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 477974006145 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 477974006146 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 477974006147 G-X-X-G motif; other site 477974006148 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 477974006149 RxxxH motif; other site 477974006150 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 477974006151 Haemolytic domain; Region: Haemolytic; cl00506 477974006152 Ribonuclease P; Region: Ribonuclease_P; cl00457 477974006153 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 477974006154 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782